GPMDB Data Sources

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==Data from publications==
==Data from publications==
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The following is a data sets with associated PubMed IDs that have supplied data to the GPMDB Project through the data sources mentioned above. The list was current, as of April 4, 2016.
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The following is a data sets with associated PubMed IDs that have supplied data to the GPMDB Project through the data sources mentioned above. The list was current, as of April 10, 2016.
#Lipton MS, Pasa-Tolic' L, Anderson GA, Anderson DJ, Auberry DL, Battista JR, Daly MJ, Fredrickson J, Hixson KK, Kostandarithes H, Masselon C, Markillie LM, Moore RJ, Romine MF, Shen Y, Stritmatter E, Tolic' N, Udseth HR, Venkateswaran A, Wong KK, Zhao R, Smith RD,  (2002) &quot;Global analysis of the Deinococcus radiodurans proteome by using accurate mass tags.&quot; <i>Proc Natl Acad Sci U S A</i> <b>99</b>(17):11049&ndash;54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/12177431 12177431]; doi: [https://dx.doi.org/10.1073/pnas.172170199 10.1073/pnas.172170199]; GPMDB: [http://gpmdb.org/data/keyword/12177431 498].
#Lipton MS, Pasa-Tolic' L, Anderson GA, Anderson DJ, Auberry DL, Battista JR, Daly MJ, Fredrickson J, Hixson KK, Kostandarithes H, Masselon C, Markillie LM, Moore RJ, Romine MF, Shen Y, Stritmatter E, Tolic' N, Udseth HR, Venkateswaran A, Wong KK, Zhao R, Smith RD,  (2002) &quot;Global analysis of the Deinococcus radiodurans proteome by using accurate mass tags.&quot; <i>Proc Natl Acad Sci U S A</i> <b>99</b>(17):11049&ndash;54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/12177431 12177431]; doi: [https://dx.doi.org/10.1073/pnas.172170199 10.1073/pnas.172170199]; GPMDB: [http://gpmdb.org/data/keyword/12177431 498].
#Liu T, Qian WJ, Strittmatter EF, Camp DG 2nd, Anderson GA, Thrall BD, Smith RD,  (2004) &quot;High-throughput comparative proteome analysis using a quantitative cysteinyl-peptide enrichment technology.&quot; <i>Anal Chem</i> <b>76</b>(18):5345&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/15362891 15362891]; doi: [https://dx.doi.org/10.1021/ac049485q 10.1021/ac049485q]; GPMDB: [http://gpmdb.org/data/keyword/15362891 6].
#Liu T, Qian WJ, Strittmatter EF, Camp DG 2nd, Anderson GA, Thrall BD, Smith RD,  (2004) &quot;High-throughput comparative proteome analysis using a quantitative cysteinyl-peptide enrichment technology.&quot; <i>Anal Chem</i> <b>76</b>(18):5345&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/15362891 15362891]; doi: [https://dx.doi.org/10.1021/ac049485q 10.1021/ac049485q]; GPMDB: [http://gpmdb.org/data/keyword/15362891 6].
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#Sauer G, Körner R, Hanisch A, Ries A, Nigg EA, Silljé HH,  (2005) &quot;Proteome analysis of the human mitotic spindle.&quot; <i>Mol Cell Proteomics</i> <b>4</b>(1):35&ndash;43; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/15561729 15561729]; doi: [https://dx.doi.org/10.1074/mcp.M400158-MCP200 10.1074/mcp.M400158-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/15561729 1].
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#Sauer G, Körner R, Hanisch A, Ries A, Nigg EA, Silljé HH,  (2005) &quot;Proteome analysis of the human mitotic spindle.&quot; <i>Mol Cell Proteomics</i> <b>4</b>(1):35&ndash;43; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/15561729 15561729]; doi: [https://dx.doi.org/10.1074/mcp.M400158-MCP200 10.1074/mcp.M400158-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/15561729 1].
#Klein C, Garcia-Rizo C, Bisle B, Scheffer B, Zischka H, Pfeiffer F, Siedler F, Oesterhelt D,  (2005) &quot;The membrane proteome of Halobacterium salinarum.&quot; <i>Proteomics</i> <b>5</b>(1):180&ndash;97; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/15619294 15619294]; doi: [https://dx.doi.org/10.1002/pmic.200400943 10.1002/pmic.200400943]; GPMDB: [http://gpmdb.org/data/keyword/15619294 37].
#Klein C, Garcia-Rizo C, Bisle B, Scheffer B, Zischka H, Pfeiffer F, Siedler F, Oesterhelt D,  (2005) &quot;The membrane proteome of Halobacterium salinarum.&quot; <i>Proteomics</i> <b>5</b>(1):180&ndash;97; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/15619294 15619294]; doi: [https://dx.doi.org/10.1002/pmic.200400943 10.1002/pmic.200400943]; GPMDB: [http://gpmdb.org/data/keyword/15619294 37].
#Searle BC, Dasari S, Wilmarth PA, Turner M, Reddy AP, David LL, Nagalla SR,  (2005) &quot;Identification of protein modifications using MS/MS de novo sequencing and the OpenSea alignment algorithm.&quot; <i>J Proteome Res</i> <b>4</b>(2):546&ndash;54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/15822933 15822933]; doi: [https://dx.doi.org/10.1021/pr049781j 10.1021/pr049781j]; GPMDB: [http://gpmdb.org/data/keyword/15822933 4].
#Searle BC, Dasari S, Wilmarth PA, Turner M, Reddy AP, David LL, Nagalla SR,  (2005) &quot;Identification of protein modifications using MS/MS de novo sequencing and the OpenSea alignment algorithm.&quot; <i>J Proteome Res</i> <b>4</b>(2):546&ndash;54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/15822933 15822933]; doi: [https://dx.doi.org/10.1021/pr049781j 10.1021/pr049781j]; GPMDB: [http://gpmdb.org/data/keyword/15822933 4].
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#Keshamouni VG, Michailidis G, Grasso CS, Anthwal S, Strahler JR, Walker A, Arenberg DA, Reddy RC, Akulapalli S, Thannickal VJ, Standiford TJ, Andrews PC, Omenn GS,  (2006) &quot;Differential protein expression profiling by iTRAQ-2DLC-MS/MS of lung cancer cells undergoing epithelial-mesenchymal transition reveals a migratory/invasive phenotype.&quot; <i>J Proteome Res</i> <b>5</b>(5):1143&ndash;54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/16674103 16674103]; doi: [https://dx.doi.org/10.1021/pr050455t 10.1021/pr050455t]; GPMDB: [http://gpmdb.org/data/keyword/16674103 3].
#Keshamouni VG, Michailidis G, Grasso CS, Anthwal S, Strahler JR, Walker A, Arenberg DA, Reddy RC, Akulapalli S, Thannickal VJ, Standiford TJ, Andrews PC, Omenn GS,  (2006) &quot;Differential protein expression profiling by iTRAQ-2DLC-MS/MS of lung cancer cells undergoing epithelial-mesenchymal transition reveals a migratory/invasive phenotype.&quot; <i>J Proteome Res</i> <b>5</b>(5):1143&ndash;54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/16674103 16674103]; doi: [https://dx.doi.org/10.1021/pr050455t 10.1021/pr050455t]; GPMDB: [http://gpmdb.org/data/keyword/16674103 3].
#Bisle B, Schmidt A, Scheibe B, Klein C, Tebbe A, Kellermann J, Siedler F, Pfeiffer F, Lottspeich F, Oesterhelt D,  (2006) &quot;Quantitative profiling of the membrane proteome in a halophilic archaeon.&quot; <i>Mol Cell Proteomics</i> <b>5</b>(9):1543&ndash;58; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/16804162 16804162]; doi: [https://dx.doi.org/10.1074/mcp.M600106-MCP200 10.1074/mcp.M600106-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/16804162 32].
#Bisle B, Schmidt A, Scheibe B, Klein C, Tebbe A, Kellermann J, Siedler F, Pfeiffer F, Lottspeich F, Oesterhelt D,  (2006) &quot;Quantitative profiling of the membrane proteome in a halophilic archaeon.&quot; <i>Mol Cell Proteomics</i> <b>5</b>(9):1543&ndash;58; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/16804162 16804162]; doi: [https://dx.doi.org/10.1074/mcp.M600106-MCP200 10.1074/mcp.M600106-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/16804162 32].
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#Hamacher M, Apweiler R, Arnold G, Becker A, Blüggel M, Carrette O, Colvis C, Dunn MJ, Fröhlich T, Fountoulakis M, van Hall A, Herberg F, Ji J, Kretzschmar H, Lewczuk P, Lubec G, Marcus K, Martens L, Palacios Bustamante N, Park YM, Pennington SR, Robben J, Stühler K, Reidegeld KA, Riederer P, Rossier J, Sanchez JC, Schrader M, Stephan C, Tagle D, Thiele H, Wang J, Wiltfang J, Yoo JS, Zhang C, Klose J, Meyer HE,  (2006) &quot;HUPO Brain Proteome Project: summary of the pilot phase and introduction of a comprehensive data reprocessing strategy.&quot; <i>Proteomics</i> <b>6</b>(18):4890&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/16927433 16927433]; doi: [https://dx.doi.org/10.1002/pmic.200600295 10.1002/pmic.200600295]; GPMDB: [http://gpmdb.org/data/keyword/16927433 296].
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#Hamacher M, Apweiler R, Arnold G, Becker A, Blüggel M, Carrette O, Colvis C, Dunn MJ, Fröhlich T, Fountoulakis M, van Hall A, Herberg F, Ji J, Kretzschmar H, Lewczuk P, Lubec G, Marcus K, Martens L, Palacios Bustamante N, Park YM, Pennington SR, Robben J, Stühler K, Reidegeld KA, Riederer P, Rossier J, Sanchez JC, Schrader M, Stephan C, Tagle D, Thiele H, Wang J, Wiltfang J, Yoo JS, Zhang C, Klose J, Meyer HE,  (2006) &quot;HUPO Brain Proteome Project: summary of the pilot phase and introduction of a comprehensive data reprocessing strategy.&quot; <i>Proteomics</i> <b>6</b>(18):4890&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/16927433 16927433]; doi: [https://dx.doi.org/10.1002/pmic.200600295 10.1002/pmic.200600295]; GPMDB: [http://gpmdb.org/data/keyword/16927433 296].
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#Beausoleil SA, Villén J, Gerber SA, Rush J, Gygi SP,  (2006) &quot;A probability-based approach for high-throughput protein phosphorylation analysis and site localization.&quot; <i>Nat Biotechnol</i> <b>24</b>(10):1285&ndash;92; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/16964243 16964243]; doi: [https://dx.doi.org/10.1038/nbt1240 10.1038/nbt1240]; GPMDB: [http://gpmdb.org/data/keyword/16964243 31].
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#Beausoleil SA, Villén J, Gerber SA, Rush J, Gygi SP,  (2006) &quot;A probability-based approach for high-throughput protein phosphorylation analysis and site localization.&quot; <i>Nat Biotechnol</i> <b>24</b>(10):1285&ndash;92; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/16964243 16964243]; doi: [https://dx.doi.org/10.1038/nbt1240 10.1038/nbt1240]; GPMDB: [http://gpmdb.org/data/keyword/16964243 31].
#Whitehead K, Kish A, Pan M, Kaur A, Reiss DJ, King N, Hohmann L, DiRuggiero J, Baliga NS,  (2006) &quot;An integrated systems approach for understanding cellular responses to gamma radiation.&quot; <i>Mol Syst Biol</i> <b>2</b>:47; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/16969339 16969339]; doi: [https://dx.doi.org/10.1038/msb4100091 10.1038/msb4100091]; GPMDB: [http://gpmdb.org/data/keyword/16969339 27].
#Whitehead K, Kish A, Pan M, Kaur A, Reiss DJ, King N, Hohmann L, DiRuggiero J, Baliga NS,  (2006) &quot;An integrated systems approach for understanding cellular responses to gamma radiation.&quot; <i>Mol Syst Biol</i> <b>2</b>:47; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/16969339 16969339]; doi: [https://dx.doi.org/10.1038/msb4100091 10.1038/msb4100091]; GPMDB: [http://gpmdb.org/data/keyword/16969339 27].
#Price TS, Lucitt MB, Wu W, Austin DJ, Pizarro A, Yocum AK, Blair IA, FitzGerald GA, Grosser T,  (2007) &quot;EBP, a program for protein identification using multiple tandem mass spectrometry datasets.&quot; <i>Mol Cell Proteomics</i> <b>6</b>(3):527&ndash;36; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/17164401 17164401]; doi: [https://dx.doi.org/10.1074/mcp.T600049-MCP200 10.1074/mcp.T600049-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/17164401 314].
#Price TS, Lucitt MB, Wu W, Austin DJ, Pizarro A, Yocum AK, Blair IA, FitzGerald GA, Grosser T,  (2007) &quot;EBP, a program for protein identification using multiple tandem mass spectrometry datasets.&quot; <i>Mol Cell Proteomics</i> <b>6</b>(3):527&ndash;36; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/17164401 17164401]; doi: [https://dx.doi.org/10.1074/mcp.T600049-MCP200 10.1074/mcp.T600049-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/17164401 314].
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#Tanner S, Shen Z, Ng J, Florea L, Guigó R, Briggs SP, Bafna V,  (2007) &quot;Improving gene annotation using peptide mass spectrometry.&quot; <i>Genome Res</i> <b>17</b>(2):231&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/17189379 17189379]; doi: [https://dx.doi.org/10.1101/gr.5646507 10.1101/gr.5646507]; GPMDB: [http://gpmdb.org/data/keyword/17189379 1].
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#Tanner S, Shen Z, Ng J, Florea L, Guigó R, Briggs SP, Bafna V,  (2007) &quot;Improving gene annotation using peptide mass spectrometry.&quot; <i>Genome Res</i> <b>17</b>(2):231&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/17189379 17189379]; doi: [https://dx.doi.org/10.1101/gr.5646507 10.1101/gr.5646507]; GPMDB: [http://gpmdb.org/data/keyword/17189379 1].
#Konstantinidis K, Tebbe A, Klein C, Scheffer B, Aivaliotis M, Bisle B, Falb M, Pfeiffer F, Siedler F, Oesterhelt D,  (2007) &quot;Genome-wide proteomics of Natronomonas pharaonis.&quot; <i>J Proteome Res</i> <b>6</b>(1):185&ndash;93; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/17203963 17203963]; doi: [https://dx.doi.org/10.1021/pr060352q 10.1021/pr060352q]; GPMDB: [http://gpmdb.org/data/keyword/17203963 176].
#Konstantinidis K, Tebbe A, Klein C, Scheffer B, Aivaliotis M, Bisle B, Falb M, Pfeiffer F, Siedler F, Oesterhelt D,  (2007) &quot;Genome-wide proteomics of Natronomonas pharaonis.&quot; <i>J Proteome Res</i> <b>6</b>(1):185&ndash;93; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/17203963 17203963]; doi: [https://dx.doi.org/10.1021/pr060352q 10.1021/pr060352q]; GPMDB: [http://gpmdb.org/data/keyword/17203963 176].
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#Villén J, Beausoleil SA, Gerber SA, Gygi SP,  (2007) &quot;Large-scale phosphorylation analysis of mouse liver.&quot; <i>Proc Natl Acad Sci U S A</i> <b>104</b>(5):1488&ndash;93; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/17242355 17242355]; doi: [https://dx.doi.org/10.1073/pnas.0609836104 10.1073/pnas.0609836104]; GPMDB: [http://gpmdb.org/data/keyword/17242355 1].
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#Villén J, Beausoleil SA, Gerber SA, Gygi SP,  (2007) &quot;Large-scale phosphorylation analysis of mouse liver.&quot; <i>Proc Natl Acad Sci U S A</i> <b>104</b>(5):1488&ndash;93; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/17242355 17242355]; doi: [https://dx.doi.org/10.1073/pnas.0609836104 10.1073/pnas.0609836104]; GPMDB: [http://gpmdb.org/data/keyword/17242355 1].
#Klein C, Aivaliotis M, Olsen JV, Falb M, Besir H, Scheffer B, Bisle B, Tebbe A, Konstantinidis K, Siedler F, Pfeiffer F, Mann M, Oesterhelt D,  (2007) &quot;The low molecular weight proteome of Halobacterium salinarum.&quot; <i>J Proteome Res</i> <b>6</b>(4):1510&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/17326674 17326674]; doi: [https://dx.doi.org/10.1021/pr060634q 10.1021/pr060634q]; GPMDB: [http://gpmdb.org/data/keyword/17326674 10].
#Klein C, Aivaliotis M, Olsen JV, Falb M, Besir H, Scheffer B, Bisle B, Tebbe A, Konstantinidis K, Siedler F, Pfeiffer F, Mann M, Oesterhelt D,  (2007) &quot;The low molecular weight proteome of Halobacterium salinarum.&quot; <i>J Proteome Res</i> <b>6</b>(4):1510&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/17326674 17326674]; doi: [https://dx.doi.org/10.1021/pr060634q 10.1021/pr060634q]; GPMDB: [http://gpmdb.org/data/keyword/17326674 10].
#Asara JM, Schweitzer MH, Freimark LM, Phillips M, Cantley LC,  (2007) &quot;Protein sequences from mastodon and Tyrannosaurus rex revealed by mass spectrometry.&quot; <i>Science</i> <b>316</b>(5822):280&ndash;5; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/17431180 17431180]; doi: [https://dx.doi.org/10.1126/science.1137614 10.1126/science.1137614]; GPMDB: [http://gpmdb.org/data/keyword/17431180 2].
#Asara JM, Schweitzer MH, Freimark LM, Phillips M, Cantley LC,  (2007) &quot;Protein sequences from mastodon and Tyrannosaurus rex revealed by mass spectrometry.&quot; <i>Science</i> <b>316</b>(5822):280&ndash;5; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/17431180 17431180]; doi: [https://dx.doi.org/10.1126/science.1137614 10.1126/science.1137614]; GPMDB: [http://gpmdb.org/data/keyword/17431180 2].
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#Yocum AK, Gratsch TE, Leff N, Strahler JR, Hunter CL, Walker AK, Michailidis G, Omenn GS, O'Shea KS, Andrews PC,  (2008) &quot;Coupled global and targeted proteomics of human embryonic stem cells during induced differentiation.&quot; <i>Mol Cell Proteomics</i> <b>7</b>(4):750&ndash;67; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18304949 18304949]; doi: [https://dx.doi.org/10.1074/mcp.M700399-MCP200 10.1074/mcp.M700399-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/18304949 18].
#Yocum AK, Gratsch TE, Leff N, Strahler JR, Hunter CL, Walker AK, Michailidis G, Omenn GS, O'Shea KS, Andrews PC,  (2008) &quot;Coupled global and targeted proteomics of human embryonic stem cells during induced differentiation.&quot; <i>Mol Cell Proteomics</i> <b>7</b>(4):750&ndash;67; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18304949 18304949]; doi: [https://dx.doi.org/10.1074/mcp.M700399-MCP200 10.1074/mcp.M700399-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/18304949 18].
#Lemeer S, Pinkse MW, Mohammed S, van Breukelen B, den Hertog J, Slijper M, Heck AJ,  (2008) &quot;Online automated in vivo zebrafish phosphoproteomics: from large-scale analysis down to a single embryo.&quot; <i>J Proteome Res</i> <b>7</b>(4):1555&ndash;64; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18307296 18307296]; doi: [https://dx.doi.org/10.1021/pr700667w 10.1021/pr700667w]; GPMDB: [http://gpmdb.org/data/keyword/18307296 148].
#Lemeer S, Pinkse MW, Mohammed S, van Breukelen B, den Hertog J, Slijper M, Heck AJ,  (2008) &quot;Online automated in vivo zebrafish phosphoproteomics: from large-scale analysis down to a single embryo.&quot; <i>J Proteome Res</i> <b>7</b>(4):1555&ndash;64; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18307296 18307296]; doi: [https://dx.doi.org/10.1021/pr700667w 10.1021/pr700667w]; GPMDB: [http://gpmdb.org/data/keyword/18307296 148].
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#Zhai B, Villén J, Beausoleil SA, Mintseris J, Gygi SP,  (2008) &quot;Phosphoproteome analysis of Drosophila melanogaster embryos.&quot; <i>J Proteome Res</i> <b>7</b>(4):1675&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18327897 18327897]; doi: [https://dx.doi.org/10.1021/pr700696a 10.1021/pr700696a]; GPMDB: [http://gpmdb.org/data/keyword/18327897 24].
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#Zhai B, Villén J, Beausoleil SA, Mintseris J, Gygi SP,  (2008) &quot;Phosphoproteome analysis of Drosophila melanogaster embryos.&quot; <i>J Proteome Res</i> <b>7</b>(4):1675&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18327897 18327897]; doi: [https://dx.doi.org/10.1021/pr700696a 10.1021/pr700696a]; GPMDB: [http://gpmdb.org/data/keyword/18327897 24].
#Denny P, Hagen FK, Hardt M, Liao L, Yan W, Arellanno M, Bassilian S, Bedi GS, Boontheung P, Cociorva D, Delahunty CM, Denny T, Dunsmore J, Faull KF, Gilligan J, Gonzalez-Begne M, Halgand F, Hall SC, Han X, Henson B, Hewel J, Hu S, Jeffrey S, Jiang J, Loo JA, Ogorzalek Loo RR, Malamud D, Melvin JE, Miroshnychenko O, Navazesh M, Niles R, Park SK, Prakobphol A, Ramachandran P, Richert M, Robinson S, Sondej M, Souda P, Sullivan MA, Takashima J, Than S, Wang J, Whitelegge JP, Witkowska HE, Wolinsky L, Xie Y, Xu T, Yu W, Ytterberg J, Wong DT, Yates JR 3rd, Fisher SJ,  (2008) &quot;The proteomes of human parotid and submandibular/sublingual gland salivas collected as the ductal secretions.&quot; <i>J Proteome Res</i> <b>7</b>(5):1994&ndash;2006; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18361515 18361515]; doi: [https://dx.doi.org/10.1021/pr700764j 10.1021/pr700764j]; GPMDB: [http://gpmdb.org/data/keyword/18361515 102].
#Denny P, Hagen FK, Hardt M, Liao L, Yan W, Arellanno M, Bassilian S, Bedi GS, Boontheung P, Cociorva D, Delahunty CM, Denny T, Dunsmore J, Faull KF, Gilligan J, Gonzalez-Begne M, Halgand F, Hall SC, Han X, Henson B, Hewel J, Hu S, Jeffrey S, Jiang J, Loo JA, Ogorzalek Loo RR, Malamud D, Melvin JE, Miroshnychenko O, Navazesh M, Niles R, Park SK, Prakobphol A, Ramachandran P, Richert M, Robinson S, Sondej M, Souda P, Sullivan MA, Takashima J, Than S, Wang J, Whitelegge JP, Witkowska HE, Wolinsky L, Xie Y, Xu T, Yu W, Ytterberg J, Wong DT, Yates JR 3rd, Fisher SJ,  (2008) &quot;The proteomes of human parotid and submandibular/sublingual gland salivas collected as the ductal secretions.&quot; <i>J Proteome Res</i> <b>7</b>(5):1994&ndash;2006; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18361515 18361515]; doi: [https://dx.doi.org/10.1021/pr700764j 10.1021/pr700764j]; GPMDB: [http://gpmdb.org/data/keyword/18361515 102].
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#Simó C, Bachi A, Cattaneo A, Guerrier L, Fortis F, Boschetti E, Podtelejnikov A, Righetti PG,  (2008) &quot;Performance of combinatorial peptide libraries in capturing the low-abundance proteome of red blood cells. 1. Behavior of mono- to hexapeptides.&quot; <i>Anal Chem</i> <b>80</b>(10):3547&ndash;56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18399644 18399644]; doi: [https://dx.doi.org/10.1021/ac702635v 10.1021/ac702635v]; GPMDB: [http://gpmdb.org/data/keyword/18399644 19].
+
#Simó C, Bachi A, Cattaneo A, Guerrier L, Fortis F, Boschetti E, Podtelejnikov A, Righetti PG,  (2008) &quot;Performance of combinatorial peptide libraries in capturing the low-abundance proteome of red blood cells. 1. Behavior of mono- to hexapeptides.&quot; <i>Anal Chem</i> <b>80</b>(10):3547&ndash;56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18399644 18399644]; doi: [https://dx.doi.org/10.1021/ac702635v 10.1021/ac702635v]; GPMDB: [http://gpmdb.org/data/keyword/18399644 19].
-
#Bachi A, Simó C, Restuccia U, Guerrier L, Fortis F, Boschetti E, Masseroli M, Righetti PG,  (2008) &quot;Performance of combinatorial peptide libraries in capturing the low-abundance proteome of red blood cells. 2. Behavior of resins containing individual amino acids.&quot; <i>Anal Chem</i> <b>80</b>(10):3557&ndash;65; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18410134 18410134]; doi: [https://dx.doi.org/10.1021/ac8001353 10.1021/ac8001353]; GPMDB: [http://gpmdb.org/data/keyword/18410134 2].
+
#Bachi A, Simó C, Restuccia U, Guerrier L, Fortis F, Boschetti E, Masseroli M, Righetti PG,  (2008) &quot;Performance of combinatorial peptide libraries in capturing the low-abundance proteome of red blood cells. 2. Behavior of resins containing individual amino acids.&quot; <i>Anal Chem</i> <b>80</b>(10):3557&ndash;65; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18410134 18410134]; doi: [https://dx.doi.org/10.1021/ac8001353 10.1021/ac8001353]; GPMDB: [http://gpmdb.org/data/keyword/18410134 2].
#Baerenfaller K, Grossmann J, Grobei MA, Hull R, Hirsch-Hoffmann M, Yalovsky S, Zimmermann P, Grossniklaus U, Gruissem W, Baginsky S,  (2008) &quot;Genome-scale proteomics reveals Arabidopsis thaliana gene models and proteome dynamics.&quot; <i>Science</i> <b>320</b>(5878):938&ndash;41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18436743 18436743]; doi: [https://dx.doi.org/10.1126/science.1157956 10.1126/science.1157956]; GPMDB: [http://gpmdb.org/data/keyword/18436743 28].
#Baerenfaller K, Grossmann J, Grobei MA, Hull R, Hirsch-Hoffmann M, Yalovsky S, Zimmermann P, Grossniklaus U, Gruissem W, Baginsky S,  (2008) &quot;Genome-scale proteomics reveals Arabidopsis thaliana gene models and proteome dynamics.&quot; <i>Science</i> <b>320</b>(5878):938&ndash;41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18436743 18436743]; doi: [https://dx.doi.org/10.1126/science.1157956 10.1126/science.1157956]; GPMDB: [http://gpmdb.org/data/keyword/18436743 28].
#Ji H, Erfani N, Tauro BJ, Kapp EA, Zhu HJ, Moritz RL, Lim JW, Simpson RJ,  (2008) &quot;Difference gel electrophoresis analysis of Ras-transformed fibroblast cell-derived exosomes.&quot; <i>Electrophoresis</i> <b>29</b>(12):2660&ndash;71; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18494037 18494037]; doi: [https://dx.doi.org/10.1002/elps.200800015 10.1002/elps.200800015]; GPMDB: [http://gpmdb.org/data/keyword/18494037 26].
#Ji H, Erfani N, Tauro BJ, Kapp EA, Zhu HJ, Moritz RL, Lim JW, Simpson RJ,  (2008) &quot;Difference gel electrophoresis analysis of Ras-transformed fibroblast cell-derived exosomes.&quot; <i>Electrophoresis</i> <b>29</b>(12):2660&ndash;71; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18494037 18494037]; doi: [https://dx.doi.org/10.1002/elps.200800015 10.1002/elps.200800015]; GPMDB: [http://gpmdb.org/data/keyword/18494037 26].
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#Yu MJ, Pisitkun T, Wang G, Aranda JF, Gonzales PA, Tchapyjnikov D, Shen RF, Alonso MA, Knepper MA,  (2008) &quot;Large-scale quantitative LC-MS/MS analysis of detergent-resistant membrane proteins from rat renal collecting duct.&quot; <i>Am J Physiol Cell Physiol</i> <b>295</b>(3):C661&ndash;78; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18596208 18596208]; doi: [https://dx.doi.org/10.1152/ajpcell.90650.2007 10.1152/ajpcell.90650.2007]; GPMDB: [http://gpmdb.org/data/keyword/18596208 137].
#Yu MJ, Pisitkun T, Wang G, Aranda JF, Gonzales PA, Tchapyjnikov D, Shen RF, Alonso MA, Knepper MA,  (2008) &quot;Large-scale quantitative LC-MS/MS analysis of detergent-resistant membrane proteins from rat renal collecting duct.&quot; <i>Am J Physiol Cell Physiol</i> <b>295</b>(3):C661&ndash;78; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18596208 18596208]; doi: [https://dx.doi.org/10.1152/ajpcell.90650.2007 10.1152/ajpcell.90650.2007]; GPMDB: [http://gpmdb.org/data/keyword/18596208 137].
#Pagliarini DJ, Calvo SE, Chang B, Sheth SA, Vafai SB, Ong SE, Walford GA, Sugiana C, Boneh A, Chen WK, Hill DE, Vidal M, Evans JG, Thorburn DR, Carr SA, Mootha VK,  (2008) &quot;A mitochondrial protein compendium elucidates complex I disease biology.&quot; <i>Cell</i> <b>134</b>(1):112&ndash;23; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18614015 18614015]; doi: [https://dx.doi.org/10.1016/j.cell.2008.06.016 10.1016/j.cell.2008.06.016]; GPMDB: [http://gpmdb.org/data/keyword/18614015 274].
#Pagliarini DJ, Calvo SE, Chang B, Sheth SA, Vafai SB, Ong SE, Walford GA, Sugiana C, Boneh A, Chen WK, Hill DE, Vidal M, Evans JG, Thorburn DR, Carr SA, Mootha VK,  (2008) &quot;A mitochondrial protein compendium elucidates complex I disease biology.&quot; <i>Cell</i> <b>134</b>(1):112&ndash;23; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18614015 18614015]; doi: [https://dx.doi.org/10.1016/j.cell.2008.06.016 10.1016/j.cell.2008.06.016]; GPMDB: [http://gpmdb.org/data/keyword/18614015 274].
-
#Merrihew GE, Davis C, Ewing B, Williams G, Käll L, Frewen BE, Noble WS, Green P, Thomas JH, MacCoss MJ,  (2008) &quot;Use of shotgun proteomics for the identification, confirmation, and correction of C. elegans gene annotations.&quot; <i>Genome Res</i> <b>18</b>(10):1660&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18653799 18653799]; doi: [https://dx.doi.org/10.1101/gr.077644.108 10.1101/gr.077644.108]; GPMDB: [http://gpmdb.org/data/keyword/18653799 369].
+
#Merrihew GE, Davis C, Ewing B, Williams G, Käll L, Frewen BE, Noble WS, Green P, Thomas JH, MacCoss MJ,  (2008) &quot;Use of shotgun proteomics for the identification, confirmation, and correction of C. elegans gene annotations.&quot; <i>Genome Res</i> <b>18</b>(10):1660&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18653799 18653799]; doi: [https://dx.doi.org/10.1101/gr.077644.108 10.1101/gr.077644.108]; GPMDB: [http://gpmdb.org/data/keyword/18653799 369].
#Dix MM, Simon GM, Cravatt BF,  (2008) &quot;Global mapping of the topography and magnitude of proteolytic events in apoptosis.&quot; <i>Cell</i> <b>134</b>(4):679&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18724940 18724940]; doi: [https://dx.doi.org/10.1016/j.cell.2008.06.038 10.1016/j.cell.2008.06.038]; GPMDB: [http://gpmdb.org/data/keyword/18724940 178].
#Dix MM, Simon GM, Cravatt BF,  (2008) &quot;Global mapping of the topography and magnitude of proteolytic events in apoptosis.&quot; <i>Cell</i> <b>134</b>(4):679&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18724940 18724940]; doi: [https://dx.doi.org/10.1016/j.cell.2008.06.038 10.1016/j.cell.2008.06.038]; GPMDB: [http://gpmdb.org/data/keyword/18724940 178].
#Kline KG, Frewen B, Bristow MR, Maccoss MJ, Wu CC,  (2008) &quot;High quality catalog of proteotypic peptides from human heart.&quot; <i>J Proteome Res</i> <b>7</b>(11):5055&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18803417 18803417]; doi: [https://dx.doi.org/10.1021/pr800239e 10.1021/pr800239e]; GPMDB: [http://gpmdb.org/data/keyword/18803417 96].
#Kline KG, Frewen B, Bristow MR, Maccoss MJ, Wu CC,  (2008) &quot;High quality catalog of proteotypic peptides from human heart.&quot; <i>J Proteome Res</i> <b>7</b>(11):5055&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18803417 18803417]; doi: [https://dx.doi.org/10.1021/pr800239e 10.1021/pr800239e]; GPMDB: [http://gpmdb.org/data/keyword/18803417 96].
-
#de Godoy LM, Olsen JV, Cox J, Nielsen ML, Hubner NC, Fröhlich F, Walther TC, Mann M,  (2008) &quot;Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast.&quot; <i>Nature</i> <b>455</b>(7217):1251&ndash;4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18820680 18820680]; doi: [https://dx.doi.org/10.1038/nature07341 10.1038/nature07341]; GPMDB: [http://gpmdb.org/data/keyword/18820680 505].
+
#de Godoy LM, Olsen JV, Cox J, Nielsen ML, Hubner NC, Fröhlich F, Walther TC, Mann M,  (2008) &quot;Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast.&quot; <i>Nature</i> <b>455</b>(7217):1251&ndash;4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18820680 18820680]; doi: [https://dx.doi.org/10.1038/nature07341 10.1038/nature07341]; GPMDB: [http://gpmdb.org/data/keyword/18820680 505].
#Liao L, Park SK, Xu T, Vanderklish P, Yates JR 3rd,  (2008) &quot;Quantitative proteomic analysis of primary neurons reveals diverse changes in synaptic protein content in fmr1 knockout mice.&quot; <i>Proc Natl Acad Sci U S A</i> <b>105</b>(40):15281&ndash;6; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18829439 18829439]; doi: [https://dx.doi.org/10.1073/pnas.0804678105 10.1073/pnas.0804678105]; GPMDB: [http://gpmdb.org/data/keyword/18829439 15].
#Liao L, Park SK, Xu T, Vanderklish P, Yates JR 3rd,  (2008) &quot;Quantitative proteomic analysis of primary neurons reveals diverse changes in synaptic protein content in fmr1 knockout mice.&quot; <i>Proc Natl Acad Sci U S A</i> <b>105</b>(40):15281&ndash;6; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18829439 18829439]; doi: [https://dx.doi.org/10.1073/pnas.0804678105 10.1073/pnas.0804678105]; GPMDB: [http://gpmdb.org/data/keyword/18829439 15].
#Lin MK, Lee YJ, Lough TJ, Phinney BS, Lucas WJ,  (2009) &quot;Analysis of the pumpkin phloem proteome provides insights into angiosperm sieve tube function.&quot; <i>Mol Cell Proteomics</i> <b>8</b>(2):343&ndash;56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18936055 18936055]; doi: [https://dx.doi.org/10.1074/mcp.M800420-MCP200 10.1074/mcp.M800420-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/18936055 346].
#Lin MK, Lee YJ, Lough TJ, Phinney BS, Lucas WJ,  (2009) &quot;Analysis of the pumpkin phloem proteome provides insights into angiosperm sieve tube function.&quot; <i>Mol Cell Proteomics</i> <b>8</b>(2):343&ndash;56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/18936055 18936055]; doi: [https://dx.doi.org/10.1074/mcp.M800420-MCP200 10.1074/mcp.M800420-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/18936055 346].
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#Rudomin EL, Carr SA, Jaffe JD,  (2009) &quot;Directed sample interrogation utilizing an accurate mass exclusion-based data-dependent acquisition strategy (AMEx).&quot; <i>J Proteome Res</i> <b>8</b>(6):3154&ndash;60; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19344186 19344186]; doi: [https://dx.doi.org/10.1021/pr801017a 10.1021/pr801017a]; GPMDB: [http://gpmdb.org/data/keyword/19344186 11].
#Rudomin EL, Carr SA, Jaffe JD,  (2009) &quot;Directed sample interrogation utilizing an accurate mass exclusion-based data-dependent acquisition strategy (AMEx).&quot; <i>J Proteome Res</i> <b>8</b>(6):3154&ndash;60; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19344186 19344186]; doi: [https://dx.doi.org/10.1021/pr801017a 10.1021/pr801017a]; GPMDB: [http://gpmdb.org/data/keyword/19344186 11].
#Steiling K, Kadar AY, Bergerat A, Flanigon J, Sridhar S, Shah V, Ahmad QR, Brody JS, Lenburg ME, Steffen M, Spira A,  (2009) &quot;Comparison of proteomic and transcriptomic profiles in the bronchial airway epithelium of current and never smokers.&quot; <i>PLoS One</i> <b>4</b>(4):e5043; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19357784 19357784]; doi: [https://dx.doi.org/10.1371/journal.pone.0005043 10.1371/journal.pone.0005043]; GPMDB: [http://gpmdb.org/data/keyword/19357784 589].
#Steiling K, Kadar AY, Bergerat A, Flanigon J, Sridhar S, Shah V, Ahmad QR, Brody JS, Lenburg ME, Steffen M, Spira A,  (2009) &quot;Comparison of proteomic and transcriptomic profiles in the bronchial airway epithelium of current and never smokers.&quot; <i>PLoS One</i> <b>4</b>(4):e5043; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19357784 19357784]; doi: [https://dx.doi.org/10.1371/journal.pone.0005043 10.1371/journal.pone.0005043]; GPMDB: [http://gpmdb.org/data/keyword/19357784 589].
-
#Hjelmervik TO, Jonsson R, Bolstad AI,  (2009) &quot;The minor salivary gland proteome in Sjögren's syndrome.&quot; <i>Oral Dis</i> <b>15</b>(5):342&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19364392 19364392]; doi: [https://dx.doi.org/10.1111/j.1601-0825.2009.01531.x 10.1111/j.1601-0825.2009.01531.x]; GPMDB: [http://gpmdb.org/data/keyword/19364392 2].
+
#Hjelmervik TO, Jonsson R, Bolstad AI,  (2009) &quot;The minor salivary gland proteome in Sjögren's syndrome.&quot; <i>Oral Dis</i> <b>15</b>(5):342&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19364392 19364392]; doi: [https://dx.doi.org/10.1111/j.1601-0825.2009.01531.x 10.1111/j.1601-0825.2009.01531.x]; GPMDB: [http://gpmdb.org/data/keyword/19364392 2].
-
#Zanivan S, Gnad F, Wickström SA, Geiger T, Macek B, Cox J, Fässler R, Mann M,  (2008) &quot;Solid tumor proteome and phosphoproteome analysis by high resolution mass spectrometry.&quot; <i>J Proteome Res</i> <b>7</b>(12):5314&ndash;26; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19367708 19367708]; GPMDB: [http://gpmdb.org/data/keyword/19367708 20].
+
#Zanivan S, Gnad F, Wickström SA, Geiger T, Macek B, Cox J, Fässler R, Mann M,  (2008) &quot;Solid tumor proteome and phosphoproteome analysis by high resolution mass spectrometry.&quot; <i>J Proteome Res</i> <b>7</b>(12):5314&ndash;26; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19367708 19367708]; GPMDB: [http://gpmdb.org/data/keyword/19367708 20].
#Reiland S, Messerli G, Baerenfaller K, Gerrits B, Endler A, Grossmann J, Gruissem W, Baginsky S,  (2009) &quot;Large-scale Arabidopsis phosphoproteome profiling reveals novel chloroplast kinase substrates and phosphorylation networks.&quot; <i>Plant Physiol</i> <b>150</b>(2):889&ndash;903; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19376835 19376835]; doi: [https://dx.doi.org/10.1104/pp.109.138677 10.1104/pp.109.138677]; GPMDB: [http://gpmdb.org/data/keyword/19376835 13].
#Reiland S, Messerli G, Baerenfaller K, Gerrits B, Endler A, Grossmann J, Gruissem W, Baginsky S,  (2009) &quot;Large-scale Arabidopsis phosphoproteome profiling reveals novel chloroplast kinase substrates and phosphorylation networks.&quot; <i>Plant Physiol</i> <b>150</b>(2):889&ndash;903; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19376835 19376835]; doi: [https://dx.doi.org/10.1104/pp.109.138677 10.1104/pp.109.138677]; GPMDB: [http://gpmdb.org/data/keyword/19376835 13].
#Parker KC, Walsh RJ, Salajegheh M, Amato AA, Krastins B, Sarracino DA, Greenberg SA,  (2009) &quot;Characterization of human skeletal muscle biopsy samples using shotgun proteomics.&quot; <i>J Proteome Res</i> <b>8</b>(7):3265&ndash;77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19382779 19382779]; doi: [https://dx.doi.org/10.1021/pr800873q 10.1021/pr800873q]; GPMDB: [http://gpmdb.org/data/keyword/19382779 36].
#Parker KC, Walsh RJ, Salajegheh M, Amato AA, Krastins B, Sarracino DA, Greenberg SA,  (2009) &quot;Characterization of human skeletal muscle biopsy samples using shotgun proteomics.&quot; <i>J Proteome Res</i> <b>8</b>(7):3265&ndash;77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19382779 19382779]; doi: [https://dx.doi.org/10.1021/pr800873q 10.1021/pr800873q]; GPMDB: [http://gpmdb.org/data/keyword/19382779 36].
#Bell AW, Deutsch EW, Au CE, Kearney RE, Beavis R, Sechi S, Nilsson T, Bergeron JJ, HUPO Test Sample Working Group,  (2009) &quot;A HUPO test sample study reveals common problems  in mass spectrometry-based proteomics.&quot; <i>Nat Methods</i> <b>6</b>(6):423&ndash;30; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19448641 19448641]; doi: [https://dx.doi.org/10.1038/nmeth.1333 10.1038/nmeth.1333]; GPMDB: [http://gpmdb.org/data/keyword/19448641 14].
#Bell AW, Deutsch EW, Au CE, Kearney RE, Beavis R, Sechi S, Nilsson T, Bergeron JJ, HUPO Test Sample Working Group,  (2009) &quot;A HUPO test sample study reveals common problems  in mass spectrometry-based proteomics.&quot; <i>Nat Methods</i> <b>6</b>(6):423&ndash;30; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19448641 19448641]; doi: [https://dx.doi.org/10.1038/nmeth.1333 10.1038/nmeth.1333]; GPMDB: [http://gpmdb.org/data/keyword/19448641 14].
-
#Fernández E, Collins MO, Uren RT, Kopanitsa MV, Komiyama NH, Croning MD, Zografos L, Armstrong JD, Choudhary JS, Grant SG,  (2009) &quot;Targeted tandem affinity purification of PSD-95 recovers core postsynaptic complexes and schizophrenia susceptibility proteins.&quot; <i>Mol Syst Biol</i> <b>5</b>:269; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19455133 19455133]; doi: [https://dx.doi.org/10.1038/msb.2009.27 10.1038/msb.2009.27]; GPMDB: [http://gpmdb.org/data/keyword/19455133 70].
+
#Fernández E, Collins MO, Uren RT, Kopanitsa MV, Komiyama NH, Croning MD, Zografos L, Armstrong JD, Choudhary JS, Grant SG,  (2009) &quot;Targeted tandem affinity purification of PSD-95 recovers core postsynaptic complexes and schizophrenia susceptibility proteins.&quot; <i>Mol Syst Biol</i> <b>5</b>:269; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19455133 19455133]; doi: [https://dx.doi.org/10.1038/msb.2009.27 10.1038/msb.2009.27]; GPMDB: [http://gpmdb.org/data/keyword/19455133 70].
#Sprung RW Jr, Brock JW, Tanksley JP, Li M, Washington MK, Slebos RJ, Liebler DC,  (2009) &quot;Equivalence of protein inventories obtained from formalin-fixed paraffin-embedded and frozen tissue in multidimensional liquid chromatography-tandem mass spectrometry shotgun proteomic analysis.&quot; <i>Mol Cell Proteomics</i> <b>8</b>(8):1988&ndash;98; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19467989 19467989]; doi: [https://dx.doi.org/10.1074/mcp.M800518-MCP200 10.1074/mcp.M800518-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/19467989 230].
#Sprung RW Jr, Brock JW, Tanksley JP, Li M, Washington MK, Slebos RJ, Liebler DC,  (2009) &quot;Equivalence of protein inventories obtained from formalin-fixed paraffin-embedded and frozen tissue in multidimensional liquid chromatography-tandem mass spectrometry shotgun proteomic analysis.&quot; <i>Mol Cell Proteomics</i> <b>8</b>(8):1988&ndash;98; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19467989 19467989]; doi: [https://dx.doi.org/10.1074/mcp.M800518-MCP200 10.1074/mcp.M800518-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/19467989 230].
#Burkard ME, Maciejowski J, Rodriguez-Bravo V, Repka M, Lowery DM, Clauser KR, Zhang C, Shokat KM, Carr SA, Yaffe MB, Jallepalli PV,  (2009) &quot;Plk1 self-organization and priming phosphorylation of HsCYK-4 at the spindle midzone regulate the onset of division in human cells.&quot; <i>PLoS Biol</i> <b>7</b>(5):e1000111; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19468302 19468302]; doi: [https://dx.doi.org/10.1371/journal.pbio.1000111 10.1371/journal.pbio.1000111]; GPMDB: [http://gpmdb.org/data/keyword/19468302 1].
#Burkard ME, Maciejowski J, Rodriguez-Bravo V, Repka M, Lowery DM, Clauser KR, Zhang C, Shokat KM, Carr SA, Yaffe MB, Jallepalli PV,  (2009) &quot;Plk1 self-organization and priming phosphorylation of HsCYK-4 at the spindle midzone regulate the onset of division in human cells.&quot; <i>PLoS Biol</i> <b>7</b>(5):e1000111; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19468302 19468302]; doi: [https://dx.doi.org/10.1371/journal.pbio.1000111 10.1371/journal.pbio.1000111]; GPMDB: [http://gpmdb.org/data/keyword/19468302 1].
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#Kentsis A, Lin YY, Kurek K, Calicchio M, Wang YY, Monigatti F, Campagne F, Lee R, Horwitz B, Steen H, Bachur R,  (2010) &quot;Discovery and validation of urine markers of acute pediatric appendicitis using high-accuracy mass spectrometry.&quot; <i>Ann Emerg Med</i> <b>55</b>(1):62&ndash;70.e4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19556024 19556024]; doi: [https://dx.doi.org/10.1016/j.annemergmed.2009.04.020 10.1016/j.annemergmed.2009.04.020]; GPMDB: [http://gpmdb.org/data/keyword/19556024 311].
#Kentsis A, Lin YY, Kurek K, Calicchio M, Wang YY, Monigatti F, Campagne F, Lee R, Horwitz B, Steen H, Bachur R,  (2010) &quot;Discovery and validation of urine markers of acute pediatric appendicitis using high-accuracy mass spectrometry.&quot; <i>Ann Emerg Med</i> <b>55</b>(1):62&ndash;70.e4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19556024 19556024]; doi: [https://dx.doi.org/10.1016/j.annemergmed.2009.04.020 10.1016/j.annemergmed.2009.04.020]; GPMDB: [http://gpmdb.org/data/keyword/19556024 311].
#Lau NC, Kolkman A, van Schaik FM, Mulder KW, Pijnappel WW, Heck AJ, Timmers HT,  (2009) &quot;Human Ccr4-Not complexes contain variable deadenylase subunits.&quot; <i>Biochem J</i> <b>422</b>(3):443&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19558367 19558367]; doi: [https://dx.doi.org/10.1042/BJ20090500 10.1042/BJ20090500]; GPMDB: [http://gpmdb.org/data/keyword/19558367 10].
#Lau NC, Kolkman A, van Schaik FM, Mulder KW, Pijnappel WW, Heck AJ, Timmers HT,  (2009) &quot;Human Ccr4-Not complexes contain variable deadenylase subunits.&quot; <i>Biochem J</i> <b>422</b>(3):443&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19558367 19558367]; doi: [https://dx.doi.org/10.1042/BJ20090500 10.1042/BJ20090500]; GPMDB: [http://gpmdb.org/data/keyword/19558367 10].
-
#Zivanovic Y, Armengaud J, Lagorce A, Leplat C, Guérin P, Dutertre M, Anthouard V, Forterre P, Wincker P, Confalonieri F,  (2009) &quot;Genome analysis and genome-wide proteomics of Thermococcus gammatolerans, the most radioresistant organism known amongst the Archaea.&quot; <i>Genome Biol</i> <b>10</b>(6):R70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19558674 19558674]; doi: [https://dx.doi.org/10.1186/gb-2009-10-6-r70 10.1186/gb-2009-10-6-r70]; GPMDB: [http://gpmdb.org/data/keyword/19558674 7].
+
#Zivanovic Y, Armengaud J, Lagorce A, Leplat C, Guérin P, Dutertre M, Anthouard V, Forterre P, Wincker P, Confalonieri F,  (2009) &quot;Genome analysis and genome-wide proteomics of Thermococcus gammatolerans, the most radioresistant organism known amongst the Archaea.&quot; <i>Genome Biol</i> <b>10</b>(6):R70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19558674 19558674]; doi: [https://dx.doi.org/10.1186/gb-2009-10-6-r70 10.1186/gb-2009-10-6-r70]; GPMDB: [http://gpmdb.org/data/keyword/19558674 7].
#Alev C, Shinmyozu K, McIntyre BA, Sheng G,  (2009) &quot;Genomic organization of zebra finch alpha and beta globin genes and their expression in primitive and definitive blood in comparison with globins in chicken.&quot; <i>Dev Genes Evol</i> <b>219</b>(7):353&ndash;60; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19609557 19609557]; doi: [https://dx.doi.org/10.1007/s00427-009-0294-8 10.1007/s00427-009-0294-8]; GPMDB: [http://gpmdb.org/data/keyword/19609557 8].
#Alev C, Shinmyozu K, McIntyre BA, Sheng G,  (2009) &quot;Genomic organization of zebra finch alpha and beta globin genes and their expression in primitive and definitive blood in comparison with globins in chicken.&quot; <i>Dev Genes Evol</i> <b>219</b>(7):353&ndash;60; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19609557 19609557]; doi: [https://dx.doi.org/10.1007/s00427-009-0294-8 10.1007/s00427-009-0294-8]; GPMDB: [http://gpmdb.org/data/keyword/19609557 8].
-
#Izquierdo L, Schulz BL, Rodrigues JA, Güther ML, Procter JB, Barton GJ, Aebi M, Ferguson MA,  (2009) &quot;Distinct donor and acceptor specificities of Trypanosoma brucei oligosaccharyltransferases.&quot; <i>EMBO J</i> <b>28</b>(17):2650&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19629045 19629045]; doi: [https://dx.doi.org/10.1038/emboj.2009.203 10.1038/emboj.2009.203]; GPMDB: [http://gpmdb.org/data/keyword/19629045 1].
+
#Izquierdo L, Schulz BL, Rodrigues JA, Güther ML, Procter JB, Barton GJ, Aebi M, Ferguson MA,  (2009) &quot;Distinct donor and acceptor specificities of Trypanosoma brucei oligosaccharyltransferases.&quot; <i>EMBO J</i> <b>28</b>(17):2650&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19629045 19629045]; doi: [https://dx.doi.org/10.1038/emboj.2009.203 10.1038/emboj.2009.203]; GPMDB: [http://gpmdb.org/data/keyword/19629045 1].
-
#Van Hoof D, Muñoz J, Braam SR, Pinkse MW, Linding R, Heck AJ, Mummery CL, Krijgsveld J,  (2009) &quot;Phosphorylation dynamics during early differentiation of human embryonic stem cells.&quot; <i>Cell Stem Cell</i> <b>5</b>(2):214&ndash;26; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19664995 19664995]; doi: [https://dx.doi.org/10.1016/j.stem.2009.05.021 10.1016/j.stem.2009.05.021]; GPMDB: [http://gpmdb.org/data/keyword/19664995 12].
+
#Van Hoof D, Muñoz J, Braam SR, Pinkse MW, Linding R, Heck AJ, Mummery CL, Krijgsveld J,  (2009) &quot;Phosphorylation dynamics during early differentiation of human embryonic stem cells.&quot; <i>Cell Stem Cell</i> <b>5</b>(2):214&ndash;26; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19664995 19664995]; doi: [https://dx.doi.org/10.1016/j.stem.2009.05.021 10.1016/j.stem.2009.05.021]; GPMDB: [http://gpmdb.org/data/keyword/19664995 12].
#Tebbe A, Schmidt A, Konstantinidis K, Falb M, Bisle B, Klein C, Aivaliotis M, Kellermann J, Siedler F, Pfeiffer F, Lottspeich F, Oesterhelt D,  (2009) &quot;Life-style changes of a halophilic archaeon analyzed by quantitative proteomics.&quot; <i>Proteomics</i> <b>9</b>(15):3843&ndash;55; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19670246 19670246]; doi: [https://dx.doi.org/10.1002/pmic.200800944 10.1002/pmic.200800944]; GPMDB: [http://gpmdb.org/data/keyword/19670246 43].
#Tebbe A, Schmidt A, Konstantinidis K, Falb M, Bisle B, Klein C, Aivaliotis M, Kellermann J, Siedler F, Pfeiffer F, Lottspeich F, Oesterhelt D,  (2009) &quot;Life-style changes of a halophilic archaeon analyzed by quantitative proteomics.&quot; <i>Proteomics</i> <b>9</b>(15):3843&ndash;55; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19670246 19670246]; doi: [https://dx.doi.org/10.1002/pmic.200800944 10.1002/pmic.200800944]; GPMDB: [http://gpmdb.org/data/keyword/19670246 43].
-
#Casado-Vela J, Rodriguez-Suarez E, Iloro I, Ametzazurra A, Alkorta N, García-Velasco JA, Matorras R, Prieto B, González S, Nagore D, Simón L, Elortza F,  (2009) &quot;Comprehensive proteomic analysis of human endometrial fluid aspirate.&quot; <i>J Proteome Res</i> <b>8</b>(10):4622&ndash;32; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19670903 19670903]; doi: [https://dx.doi.org/10.1021/pr9004426 10.1021/pr9004426]; GPMDB: [http://gpmdb.org/data/keyword/19670903 4].
+
#Casado-Vela J, Rodriguez-Suarez E, Iloro I, Ametzazurra A, Alkorta N, García-Velasco JA, Matorras R, Prieto B, González S, Nagore D, Simón L, Elortza F,  (2009) &quot;Comprehensive proteomic analysis of human endometrial fluid aspirate.&quot; <i>J Proteome Res</i> <b>8</b>(10):4622&ndash;32; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19670903 19670903]; doi: [https://dx.doi.org/10.1021/pr9004426 10.1021/pr9004426]; GPMDB: [http://gpmdb.org/data/keyword/19670903 4].
#Charles RC, Harris JB, Chase MR, Lebrun LM, Sheikh A, LaRocque RC, Logvinenko T, Rollins SM, Tarique A, Hohmann EL, Rosenberg I, Krastins B, Sarracino DA, Qadri F, Calderwood SB, Ryan ET,  (2009) &quot;Comparative proteomic analysis of the PhoP regulon in Salmonella enterica serovar Typhi versus Typhimurium.&quot; <i>PLoS One</i> <b>4</b>(9):e6994; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19746165 19746165]; doi: [https://dx.doi.org/10.1371/journal.pone.0006994 10.1371/journal.pone.0006994]; GPMDB: [http://gpmdb.org/data/keyword/19746165 6].
#Charles RC, Harris JB, Chase MR, Lebrun LM, Sheikh A, LaRocque RC, Logvinenko T, Rollins SM, Tarique A, Hohmann EL, Rosenberg I, Krastins B, Sarracino DA, Qadri F, Calderwood SB, Ryan ET,  (2009) &quot;Comparative proteomic analysis of the PhoP regulon in Salmonella enterica serovar Typhi versus Typhimurium.&quot; <i>PLoS One</i> <b>4</b>(9):e6994; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19746165 19746165]; doi: [https://dx.doi.org/10.1371/journal.pone.0006994 10.1371/journal.pone.0006994]; GPMDB: [http://gpmdb.org/data/keyword/19746165 6].
#Pottiez G, Flahaut C, Cecchelli R, Karamanos Y,  (2009) &quot;Understanding the blood-brain barrier using gene and protein expression profiling technologies.&quot; <i>Brain Res Rev</i> <b>62</b>(1):83&ndash;98; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19770003 19770003]; doi: [https://dx.doi.org/10.1016/j.brainresrev.2009.09.004 10.1016/j.brainresrev.2009.09.004]; GPMDB: [http://gpmdb.org/data/keyword/19770003 6].
#Pottiez G, Flahaut C, Cecchelli R, Karamanos Y,  (2009) &quot;Understanding the blood-brain barrier using gene and protein expression profiling technologies.&quot; <i>Brain Res Rev</i> <b>62</b>(1):83&ndash;98; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19770003 19770003]; doi: [https://dx.doi.org/10.1016/j.brainresrev.2009.09.004 10.1016/j.brainresrev.2009.09.004]; GPMDB: [http://gpmdb.org/data/keyword/19770003 6].
#Boersema PJ, Foong LY, Ding VM, Lemeer S, van Breukelen B, Philp R, Boekhorst J, Snel B, den Hertog J, Choo AB, Heck AJ,  (2010) &quot;In-depth qualitative and quantitative profiling of tyrosine phosphorylation using a combination of phosphopeptide immunoaffinity purification and stable isotope dimethyl labeling.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(1):84&ndash;99; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19770167 19770167]; doi: [https://dx.doi.org/10.1074/mcp.M900291-MCP200 10.1074/mcp.M900291-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/19770167 4].
#Boersema PJ, Foong LY, Ding VM, Lemeer S, van Breukelen B, Philp R, Boekhorst J, Snel B, den Hertog J, Choo AB, Heck AJ,  (2010) &quot;In-depth qualitative and quantitative profiling of tyrosine phosphorylation using a combination of phosphopeptide immunoaffinity purification and stable isotope dimethyl labeling.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(1):84&ndash;99; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19770167 19770167]; doi: [https://dx.doi.org/10.1074/mcp.M900291-MCP200 10.1074/mcp.M900291-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/19770167 4].
-
#Ozlü N, Monigatti F, Renard BY, Field CM, Steen H, Mitchison TJ, Steen JJ,  (2010) &quot;Binding partner switching on microtubules and aurora-B in the mitosis to cytokinesis transition.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(2):336&ndash;50; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19786723 19786723]; doi: [https://dx.doi.org/10.1074/mcp.M900308-MCP200 10.1074/mcp.M900308-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/19786723 13].
+
#Ozlü N, Monigatti F, Renard BY, Field CM, Steen H, Mitchison TJ, Steen JJ,  (2010) &quot;Binding partner switching on microtubules and aurora-B in the mitosis to cytokinesis transition.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(2):336&ndash;50; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19786723 19786723]; doi: [https://dx.doi.org/10.1074/mcp.M900308-MCP200 10.1074/mcp.M900308-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/19786723 13].
#Johansen E, Schilling B, Lerch M, Niles RK, Liu H, Li B, Allen S, Hall SC, Witkowska HE, Regnier FE, Gibson BW, Fisher SJ, Drake PM,  (2009) &quot;A lectin HPLC method to enrich selectively-glycosylated peptides from complex biological samples.&quot; <i>J Vis Exp</i> <b></b>(32):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19798022 19798022]; doi: [https://dx.doi.org/10.3791/1398 10.3791/1398]; GPMDB: [http://gpmdb.org/data/keyword/19798022 83].
#Johansen E, Schilling B, Lerch M, Niles RK, Liu H, Li B, Allen S, Hall SC, Witkowska HE, Regnier FE, Gibson BW, Fisher SJ, Drake PM,  (2009) &quot;A lectin HPLC method to enrich selectively-glycosylated peptides from complex biological samples.&quot; <i>J Vis Exp</i> <b></b>(32):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19798022 19798022]; doi: [https://dx.doi.org/10.3791/1398 10.3791/1398]; GPMDB: [http://gpmdb.org/data/keyword/19798022 83].
#Hahn CK, Berchuck JE, Ross KN, Kakoza RM, Clauser K, Schinzel AC, Ross L, Galinsky I, Davis TN, Silver SJ, Root DE, Stone RM, DeAngelo DJ, Carroll M, Hahn WC, Carr SA, Golub TR, Kung AL, Stegmaier K,  (2009) &quot;Proteomic and genetic approaches identify Syk as an AML target.&quot; <i>Cancer Cell</i> <b>16</b>(4):281&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19800574 19800574]; doi: [https://dx.doi.org/10.1016/j.ccr.2009.08.018 10.1016/j.ccr.2009.08.018]; GPMDB: [http://gpmdb.org/data/keyword/19800574 8].
#Hahn CK, Berchuck JE, Ross KN, Kakoza RM, Clauser K, Schinzel AC, Ross L, Galinsky I, Davis TN, Silver SJ, Root DE, Stone RM, DeAngelo DJ, Carroll M, Hahn WC, Carr SA, Golub TR, Kung AL, Stegmaier K,  (2009) &quot;Proteomic and genetic approaches identify Syk as an AML target.&quot; <i>Cancer Cell</i> <b>16</b>(4):281&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19800574 19800574]; doi: [https://dx.doi.org/10.1016/j.ccr.2009.08.018 10.1016/j.ccr.2009.08.018]; GPMDB: [http://gpmdb.org/data/keyword/19800574 8].
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#Tunica DG, Yin X, Sidibe A, Stegemann C, Nissum M, Zeng L, Brunet M, Mayr M,  (2009) &quot;Proteomic analysis of the secretome of human umbilical vein endothelial cells using a combination of free-flow electrophoresis and nanoflow LC-MS/MS.&quot; <i>Proteomics</i> <b>9</b>(21):4991&ndash;6; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19810032 19810032]; doi: [https://dx.doi.org/10.1002/pmic.200900065 10.1002/pmic.200900065]; GPMDB: [http://gpmdb.org/data/keyword/19810032 1].
#Tunica DG, Yin X, Sidibe A, Stegemann C, Nissum M, Zeng L, Brunet M, Mayr M,  (2009) &quot;Proteomic analysis of the secretome of human umbilical vein endothelial cells using a combination of free-flow electrophoresis and nanoflow LC-MS/MS.&quot; <i>Proteomics</i> <b>9</b>(21):4991&ndash;6; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19810032 19810032]; doi: [https://dx.doi.org/10.1002/pmic.200900065 10.1002/pmic.200900065]; GPMDB: [http://gpmdb.org/data/keyword/19810032 1].
#Mathivanan S, Lim JW, Tauro BJ, Ji H, Moritz RL, Simpson RJ,  (2010) &quot;Proteomics analysis of A33 immunoaffinity-purified exosomes released from the human colon tumor cell line LIM1215 reveals a tissue-specific protein signature.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(2):197&ndash;208; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19837982 19837982]; doi: [https://dx.doi.org/10.1074/mcp.M900152-MCP200 10.1074/mcp.M900152-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/19837982 84].
#Mathivanan S, Lim JW, Tauro BJ, Ji H, Moritz RL, Simpson RJ,  (2010) &quot;Proteomics analysis of A33 immunoaffinity-purified exosomes released from the human colon tumor cell line LIM1215 reveals a tissue-specific protein signature.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(2):197&ndash;208; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19837982 19837982]; doi: [https://dx.doi.org/10.1074/mcp.M900152-MCP200 10.1074/mcp.M900152-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/19837982 84].
-
#Baudet M, Ortet P, Gaillard JC, Fernandez B, Guérin P, Enjalbal C, Subra G, de Groot A, Barakat M, Dedieu A, Armengaud J,  (2010) &quot;Proteomics-based refinement of Deinococcus deserti genome annotation reveals an unwonted use of non-canonical translation initiation codons.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(2):415&ndash;26; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19875382 19875382]; doi: [https://dx.doi.org/10.1074/mcp.M900359-MCP200 10.1074/mcp.M900359-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/19875382 19].
+
#Baudet M, Ortet P, Gaillard JC, Fernandez B, Guérin P, Enjalbal C, Subra G, de Groot A, Barakat M, Dedieu A, Armengaud J,  (2010) &quot;Proteomics-based refinement of Deinococcus deserti genome annotation reveals an unwonted use of non-canonical translation initiation codons.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(2):415&ndash;26; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19875382 19875382]; doi: [https://dx.doi.org/10.1074/mcp.M900359-MCP200 10.1074/mcp.M900359-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/19875382 19].
-
#Pitteri SJ, JeBailey L, Faça VM, Thorpe JD, Silva MA, Ireton RC, Horton MB, Wang H, Pruitt LC, Zhang Q, Cheng KH, Urban N, Hanash SM, Dinulescu DM,  (2009) &quot;Integrated proteomic analysis of human cancer cells and plasma from tumor bearing mice for ovarian cancer biomarker discovery.&quot; <i>PLoS One</i> <b>4</b>(11):e7916; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19936259 19936259]; doi: [https://dx.doi.org/10.1371/journal.pone.0007916 10.1371/journal.pone.0007916]; GPMDB: [http://gpmdb.org/data/keyword/19936259 144].
+
#Pitteri SJ, JeBailey L, Faça VM, Thorpe JD, Silva MA, Ireton RC, Horton MB, Wang H, Pruitt LC, Zhang Q, Cheng KH, Urban N, Hanash SM, Dinulescu DM,  (2009) &quot;Integrated proteomic analysis of human cancer cells and plasma from tumor bearing mice for ovarian cancer biomarker discovery.&quot; <i>PLoS One</i> <b>4</b>(11):e7916; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19936259 19936259]; doi: [https://dx.doi.org/10.1371/journal.pone.0007916 10.1371/journal.pone.0007916]; GPMDB: [http://gpmdb.org/data/keyword/19936259 144].
#Bilodeau N, Fiset A, Boulanger MC, Bhardwaj S, Winstall E, Lavoie JN, Faure RL,  (2010) &quot;Proteomic analysis of Src family kinases signaling complexes in Golgi/endosomal fractions using a site-selective anti-phosphotyrosine antibody: identification of LRP1-insulin receptor complexes.&quot; <i>J Proteome Res</i> <b>9</b>(2):708&ndash;17; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19947650 19947650]; doi: [https://dx.doi.org/10.1021/pr900481b 10.1021/pr900481b]; GPMDB: [http://gpmdb.org/data/keyword/19947650 17].
#Bilodeau N, Fiset A, Boulanger MC, Bhardwaj S, Winstall E, Lavoie JN, Faure RL,  (2010) &quot;Proteomic analysis of Src family kinases signaling complexes in Golgi/endosomal fractions using a site-selective anti-phosphotyrosine antibody: identification of LRP1-insulin receptor complexes.&quot; <i>J Proteome Res</i> <b>9</b>(2):708&ndash;17; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19947650 19947650]; doi: [https://dx.doi.org/10.1021/pr900481b 10.1021/pr900481b]; GPMDB: [http://gpmdb.org/data/keyword/19947650 17].
#Mathias RA, Chen YS, Wang B, Ji H, Kapp EA, Moritz RL, Zhu HJ, Simpson RJ,  (2010) &quot;Extracellular remodelling during oncogenic Ras-induced epithelial-mesenchymal transition facilitates MDCK cell migration.&quot; <i>J Proteome Res</i> <b>9</b>(2):1007&ndash;19; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19954229 19954229]; doi: [https://dx.doi.org/10.1021/pr900907g 10.1021/pr900907g]; GPMDB: [http://gpmdb.org/data/keyword/19954229 66].
#Mathias RA, Chen YS, Wang B, Ji H, Kapp EA, Moritz RL, Zhu HJ, Simpson RJ,  (2010) &quot;Extracellular remodelling during oncogenic Ras-induced epithelial-mesenchymal transition facilitates MDCK cell migration.&quot; <i>J Proteome Res</i> <b>9</b>(2):1007&ndash;19; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/19954229 19954229]; doi: [https://dx.doi.org/10.1021/pr900907g 10.1021/pr900907g]; GPMDB: [http://gpmdb.org/data/keyword/19954229 66].
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#Swaney DL, Wenger CD, Coon JJ,  (2010) &quot;Value of using multiple proteases for large-scale mass spectrometry-based proteomics.&quot; <i>J Proteome Res</i> <b>9</b>(3):1323&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20113005 20113005]; doi: [https://dx.doi.org/10.1021/pr900863u 10.1021/pr900863u]; GPMDB: [http://gpmdb.org/data/keyword/20113005 15].
#Swaney DL, Wenger CD, Coon JJ,  (2010) &quot;Value of using multiple proteases for large-scale mass spectrometry-based proteomics.&quot; <i>J Proteome Res</i> <b>9</b>(3):1323&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20113005 20113005]; doi: [https://dx.doi.org/10.1021/pr900863u 10.1021/pr900863u]; GPMDB: [http://gpmdb.org/data/keyword/20113005 15].
#Rinschen MM, Yu MJ, Wang G, Boja ES, Hoffert JD, Pisitkun T, Knepper MA,  (2010) &quot;Quantitative phosphoproteomic analysis reveals vasopressin V2-receptor-dependent signaling pathways in renal collecting duct cells.&quot; <i>Proc Natl Acad Sci U S A</i> <b>107</b>(8):3882&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20139300 20139300]; doi: [https://dx.doi.org/10.1073/pnas.0910646107 10.1073/pnas.0910646107]; GPMDB: [http://gpmdb.org/data/keyword/20139300 117].
#Rinschen MM, Yu MJ, Wang G, Boja ES, Hoffert JD, Pisitkun T, Knepper MA,  (2010) &quot;Quantitative phosphoproteomic analysis reveals vasopressin V2-receptor-dependent signaling pathways in renal collecting duct cells.&quot; <i>Proc Natl Acad Sci U S A</i> <b>107</b>(8):3882&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20139300 20139300]; doi: [https://dx.doi.org/10.1073/pnas.0910646107 10.1073/pnas.0910646107]; GPMDB: [http://gpmdb.org/data/keyword/20139300 117].
-
#Looso M, Borchardt T, Krüger M, Braun T,  (2010) &quot;Advanced identification of proteins in uncharacterized proteomes by pulsed in vivo stable isotope labeling-based mass spectrometry.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(6):1157&ndash;66; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20139370 20139370]; doi: [https://dx.doi.org/10.1074/mcp.M900426-MCP200 10.1074/mcp.M900426-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/20139370 23].
+
#Looso M, Borchardt T, Krüger M, Braun T,  (2010) &quot;Advanced identification of proteins in uncharacterized proteomes by pulsed in vivo stable isotope labeling-based mass spectrometry.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(6):1157&ndash;66; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20139370 20139370]; doi: [https://dx.doi.org/10.1074/mcp.M900426-MCP200 10.1074/mcp.M900426-MCP200]; GPMDB: [http://gpmdb.org/data/keyword/20139370 23].
-
#Tomazella GG, daSilva I, Thomé CH, Greene LJ, Koehler CJ, Thiede B, Wiker HG, de Souza GA,  (2010) &quot;Analysis of detergent-insoluble and whole cell lysate fractions of resting neutrophils using high-resolution mass spectrometry.&quot; <i>J Proteome Res</i> <b>9</b>(4):2030&ndash;6; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20158270 20158270]; doi: [https://dx.doi.org/10.1021/pr1000253 10.1021/pr1000253]; GPMDB: [http://gpmdb.org/data/keyword/20158270 2].
+
#Tomazella GG, daSilva I, Thomé CH, Greene LJ, Koehler CJ, Thiede B, Wiker HG, de Souza GA,  (2010) &quot;Analysis of detergent-insoluble and whole cell lysate fractions of resting neutrophils using high-resolution mass spectrometry.&quot; <i>J Proteome Res</i> <b>9</b>(4):2030&ndash;6; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20158270 20158270]; doi: [https://dx.doi.org/10.1021/pr1000253 10.1021/pr1000253]; GPMDB: [http://gpmdb.org/data/keyword/20158270 2].
-
#Sharma K, Kumar C, Kéri G, Breitkopf SB, Oppermann FS, Daub H,  (2010) &quot;Quantitative analysis of kinase-proximal signaling in lipopolysaccharide-induced innate immune response.&quot; <i>J Proteome Res</i> <b>9</b>(5):2539&ndash;49; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20222745 20222745]; doi: [https://dx.doi.org/10.1021/pr901192p 10.1021/pr901192p]; GPMDB: [http://gpmdb.org/data/keyword/20222745 73].
+
#Sharma K, Kumar C, Kéri G, Breitkopf SB, Oppermann FS, Daub H,  (2010) &quot;Quantitative analysis of kinase-proximal signaling in lipopolysaccharide-induced innate immune response.&quot; <i>J Proteome Res</i> <b>9</b>(5):2539&ndash;49; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20222745 20222745]; doi: [https://dx.doi.org/10.1021/pr901192p 10.1021/pr901192p]; GPMDB: [http://gpmdb.org/data/keyword/20222745 73].
-
#Baiges I, Palmfeldt J, Bladé C, Gregersen N, Arola L,  (2010) &quot;Lipogenesis is decreased by grape seed proanthocyanidins according to liver proteomics of rats fed a high fat diet.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(7):1499&ndash;513; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20332082 20332082]; doi: [https://dx.doi.org/10.1074/mcp.M000055-MCP201 10.1074/mcp.M000055-MCP201]; GPMDB: [http://gpmdb.org/data/keyword/20332082 2].
+
#Baiges I, Palmfeldt J, Bladé C, Gregersen N, Arola L,  (2010) &quot;Lipogenesis is decreased by grape seed proanthocyanidins according to liver proteomics of rats fed a high fat diet.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(7):1499&ndash;513; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20332082 20332082]; doi: [https://dx.doi.org/10.1074/mcp.M000055-MCP201 10.1074/mcp.M000055-MCP201]; GPMDB: [http://gpmdb.org/data/keyword/20332082 2].
#Drake RR, Elschenbroich S, Lopez-Perez O, Kim Y, Ignatchenko V, Ignatchenko A, Nyalwidhe JO, Basu G, Wilkins CE, Gjurich B, Lance RS, Semmes OJ, Medin JA, Kislinger T,  (2010) &quot;In-depth proteomic analyses of direct expressed prostatic secretions.&quot; <i>J Proteome Res</i> <b>9</b>(5):2109&ndash;16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20334419 20334419]; doi: [https://dx.doi.org/10.1021/pr1001498 10.1021/pr1001498]; GPMDB: [http://gpmdb.org/data/keyword/20334419 9].
#Drake RR, Elschenbroich S, Lopez-Perez O, Kim Y, Ignatchenko V, Ignatchenko A, Nyalwidhe JO, Basu G, Wilkins CE, Gjurich B, Lance RS, Semmes OJ, Medin JA, Kislinger T,  (2010) &quot;In-depth proteomic analyses of direct expressed prostatic secretions.&quot; <i>J Proteome Res</i> <b>9</b>(5):2109&ndash;16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20334419 20334419]; doi: [https://dx.doi.org/10.1021/pr1001498 10.1021/pr1001498]; GPMDB: [http://gpmdb.org/data/keyword/20334419 9].
#Ettwig KF, Butler MK, Le Paslier D, Pelletier E, Mangenot S, Kuypers MM, Schreiber F, Dutilh BE, Zedelius J, de Beer D, Gloerich J, Wessels HJ, van Alen T, Luesken F, Wu ML, van de Pas-Schoonen KT, Op den Camp HJ, Janssen-Megens EM, Francoijs KJ, Stunnenberg H, Weissenbach J, Jetten MS, Strous M,  (2010) &quot;Nitrite-driven anaerobic methane oxidation by oxygenic bacteria.&quot; <i>Nature</i> <b>464</b>(7288):543&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20336137 20336137]; doi: [https://dx.doi.org/10.1038/nature08883 10.1038/nature08883]; GPMDB: [http://gpmdb.org/data/keyword/20336137 2].
#Ettwig KF, Butler MK, Le Paslier D, Pelletier E, Mangenot S, Kuypers MM, Schreiber F, Dutilh BE, Zedelius J, de Beer D, Gloerich J, Wessels HJ, van Alen T, Luesken F, Wu ML, van de Pas-Schoonen KT, Op den Camp HJ, Janssen-Megens EM, Francoijs KJ, Stunnenberg H, Weissenbach J, Jetten MS, Strous M,  (2010) &quot;Nitrite-driven anaerobic methane oxidation by oxygenic bacteria.&quot; <i>Nature</i> <b>464</b>(7288):543&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20336137 20336137]; doi: [https://dx.doi.org/10.1038/nature08883 10.1038/nature08883]; GPMDB: [http://gpmdb.org/data/keyword/20336137 2].
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#Clair G, Roussi S, Armengaud J, Duport C,  (2010) &quot;Expanding the known repertoire of virulence factors produced by Bacillus cereus through early secretome profiling in three redox conditions.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(7):1486&ndash;98; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20368289 20368289]; doi: [https://dx.doi.org/10.1074/mcp.M000027-MCP201 10.1074/mcp.M000027-MCP201]; GPMDB: [http://gpmdb.org/data/keyword/20368289 27].
#Clair G, Roussi S, Armengaud J, Duport C,  (2010) &quot;Expanding the known repertoire of virulence factors produced by Bacillus cereus through early secretome profiling in three redox conditions.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(7):1486&ndash;98; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20368289 20368289]; doi: [https://dx.doi.org/10.1074/mcp.M000027-MCP201 10.1074/mcp.M000027-MCP201]; GPMDB: [http://gpmdb.org/data/keyword/20368289 27].
#Aguiar M, Haas W, Beausoleil SA, Rush J, Gygi SP,  (2010) &quot;Gas-phase rearrangements do not affect site localization reliability in phosphoproteomics data sets.&quot; <i>J Proteome Res</i> <b>9</b>(6):3103&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20377248 20377248]; doi: [https://dx.doi.org/10.1021/pr1000225 10.1021/pr1000225]; GPMDB: [http://gpmdb.org/data/keyword/20377248 13].
#Aguiar M, Haas W, Beausoleil SA, Rush J, Gygi SP,  (2010) &quot;Gas-phase rearrangements do not affect site localization reliability in phosphoproteomics data sets.&quot; <i>J Proteome Res</i> <b>9</b>(6):3103&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20377248 20377248]; doi: [https://dx.doi.org/10.1021/pr1000225 10.1021/pr1000225]; GPMDB: [http://gpmdb.org/data/keyword/20377248 13].
-
#Vandenborre G, Van Damme EJ, Ghesquière B, Menschaert G, Hamshou M, Rao RN, Gevaert K, Smagghe G,  (2010) &quot;Glycosylation signatures in Drosophila: fishing with lectins.&quot; <i>J Proteome Res</i> <b>9</b>(6):3235&ndash;42; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20387871 20387871]; doi: [https://dx.doi.org/10.1021/pr1001753 10.1021/pr1001753]; GPMDB: [http://gpmdb.org/data/keyword/20387871 1].
+
#Vandenborre G, Van Damme EJ, Ghesquière B, Menschaert G, Hamshou M, Rao RN, Gevaert K, Smagghe G,  (2010) &quot;Glycosylation signatures in Drosophila: fishing with lectins.&quot; <i>J Proteome Res</i> <b>9</b>(6):3235&ndash;42; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20387871 20387871]; doi: [https://dx.doi.org/10.1021/pr1001753 10.1021/pr1001753]; GPMDB: [http://gpmdb.org/data/keyword/20387871 1].
#Bakthavatsalam D, Gomer RH,  (2010) &quot;The secreted proteome profile of developing Dictyostelium discoideum cells.&quot; <i>Proteomics</i> <b>10</b>(13):2556&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20422638 20422638]; doi: [https://dx.doi.org/10.1002/pmic.200900516 10.1002/pmic.200900516]; GPMDB: [http://gpmdb.org/data/keyword/20422638 1].
#Bakthavatsalam D, Gomer RH,  (2010) &quot;The secreted proteome profile of developing Dictyostelium discoideum cells.&quot; <i>Proteomics</i> <b>10</b>(13):2556&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20422638 20422638]; doi: [https://dx.doi.org/10.1002/pmic.200900516 10.1002/pmic.200900516]; GPMDB: [http://gpmdb.org/data/keyword/20422638 1].
#Olinares PD, Ponnala L, van Wijk KJ,  (2010) &quot;Megadalton complexes in the chloroplast stroma of Arabidopsis thaliana characterized by size exclusion chromatography, mass spectrometry, and hierarchical clustering.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(7):1594&ndash;615; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20423899 20423899]; doi: [https://dx.doi.org/10.1074/mcp.M000038-MCP201 10.1074/mcp.M000038-MCP201]; GPMDB: [http://gpmdb.org/data/keyword/20423899 110].
#Olinares PD, Ponnala L, van Wijk KJ,  (2010) &quot;Megadalton complexes in the chloroplast stroma of Arabidopsis thaliana characterized by size exclusion chromatography, mass spectrometry, and hierarchical clustering.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(7):1594&ndash;615; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20423899 20423899]; doi: [https://dx.doi.org/10.1074/mcp.M000038-MCP201 10.1074/mcp.M000038-MCP201]; GPMDB: [http://gpmdb.org/data/keyword/20423899 110].
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#Hah N, Kolkman A, Ruhl DD, Pijnappel WW, Heck AJ, Timmers HT, Kraus WL,  (2010) &quot;A role for BAF57 in cell cycle-dependent transcriptional regulation by the SWI/SNF chromatin remodeling complex.&quot; <i>Cancer Res</i> <b>70</b>(11):4402&ndash;11; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20460533 20460533]; doi: [https://dx.doi.org/10.1158/0008-5472.CAN-09-2767 10.1158/0008-5472.CAN-09-2767]; GPMDB: [http://gpmdb.org/data/keyword/20460533 2].
#Hah N, Kolkman A, Ruhl DD, Pijnappel WW, Heck AJ, Timmers HT, Kraus WL,  (2010) &quot;A role for BAF57 in cell cycle-dependent transcriptional regulation by the SWI/SNF chromatin remodeling complex.&quot; <i>Cancer Res</i> <b>70</b>(11):4402&ndash;11; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20460533 20460533]; doi: [https://dx.doi.org/10.1158/0008-5472.CAN-09-2767 10.1158/0008-5472.CAN-09-2767]; GPMDB: [http://gpmdb.org/data/keyword/20460533 2].
#Choudhary C, Mann M,  (2010) &quot;Decoding signalling networks by mass spectrometry-based proteomics.&quot; <i>Nat Rev Mol Cell Biol</i> <b>11</b>(6):427&ndash;39; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20461098 20461098]; doi: [https://dx.doi.org/10.1038/nrm2900 10.1038/nrm2900]; GPMDB: [http://gpmdb.org/data/keyword/20461098 17].
#Choudhary C, Mann M,  (2010) &quot;Decoding signalling networks by mass spectrometry-based proteomics.&quot; <i>Nat Rev Mol Cell Biol</i> <b>11</b>(6):427&ndash;39; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20461098 20461098]; doi: [https://dx.doi.org/10.1038/nrm2900 10.1038/nrm2900]; GPMDB: [http://gpmdb.org/data/keyword/20461098 17].
-
#Casado-Vela J, Muries B, Carvajal M, Iloro I, Elortza F, Martínez-Ballesta MC,  (2010) &quot;Analysis of root plasma membrane aquaporins from Brassica oleracea: post-translational modifications, de novo sequencing and detection of isoforms by high resolution mass spectrometry.&quot; <i>J Proteome Res</i> <b>9</b>(7):3479&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20462273 20462273]; doi: [https://dx.doi.org/10.1021/pr901150g 10.1021/pr901150g]; GPMDB: [http://gpmdb.org/data/keyword/20462273 8].
+
#Casado-Vela J, Muries B, Carvajal M, Iloro I, Elortza F, Martínez-Ballesta MC,  (2010) &quot;Analysis of root plasma membrane aquaporins from Brassica oleracea: post-translational modifications, de novo sequencing and detection of isoforms by high resolution mass spectrometry.&quot; <i>J Proteome Res</i> <b>9</b>(7):3479&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20462273 20462273]; doi: [https://dx.doi.org/10.1021/pr901150g 10.1021/pr901150g]; GPMDB: [http://gpmdb.org/data/keyword/20462273 8].
#Hubner NC, Bird AW, Cox J, Splettstoesser B, Bandilla P, Poser I, Hyman A, Mann M,  (2010) &quot;Quantitative proteomics combined with BAC TransgeneOmics reveals in vivo protein interactions.&quot; <i>J Cell Biol</i> <b>189</b>(4):739&ndash;54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20479470 20479470]; doi: [https://dx.doi.org/10.1083/jcb.200911091 10.1083/jcb.200911091]; GPMDB: [http://gpmdb.org/data/keyword/20479470 61].
#Hubner NC, Bird AW, Cox J, Splettstoesser B, Bandilla P, Poser I, Hyman A, Mann M,  (2010) &quot;Quantitative proteomics combined with BAC TransgeneOmics reveals in vivo protein interactions.&quot; <i>J Cell Biol</i> <b>189</b>(4):739&ndash;54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20479470 20479470]; doi: [https://dx.doi.org/10.1083/jcb.200911091 10.1083/jcb.200911091]; GPMDB: [http://gpmdb.org/data/keyword/20479470 61].
-
#Peng L, Kapp EA, Fenyö D, Kwon MS, Jiang P, Wu S, Jiang Y, Aguilar MI, Ahmed N, Baker MS, Cai Z, Chen YJ, Van Chi P, Chung MC, He F, Len AC, Liao PC, Nakamura K, Ngai SM, Paik YK, Pan TL, Poon TC, Salekdeh GH, Simpson RJ, Sirdeshmukh R, Srisomsap C, Svasti J, Tyan YC, Dreyer FS, McLauchlan D, Rawson P, Jordan TW,  (2010) &quot;The Asia Oceania Human Proteome Organisation Membrane Proteomics Initiative. Preparation and characterisation of the carbonate-washed membrane standard.&quot; <i>Proteomics</i> <b>10</b>(22):4142&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20486120 20486120]; doi: [https://dx.doi.org/10.1002/pmic.201000126 10.1002/pmic.201000126]; GPMDB: [http://gpmdb.org/data/keyword/20486120 2].
+
#Peng L, Kapp EA, Fenyö D, Kwon MS, Jiang P, Wu S, Jiang Y, Aguilar MI, Ahmed N, Baker MS, Cai Z, Chen YJ, Van Chi P, Chung MC, He F, Len AC, Liao PC, Nakamura K, Ngai SM, Paik YK, Pan TL, Poon TC, Salekdeh GH, Simpson RJ, Sirdeshmukh R, Srisomsap C, Svasti J, Tyan YC, Dreyer FS, McLauchlan D, Rawson P, Jordan TW,  (2010) &quot;The Asia Oceania Human Proteome Organisation Membrane Proteomics Initiative. Preparation and characterisation of the carbonate-washed membrane standard.&quot; <i>Proteomics</i> <b>10</b>(22):4142&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20486120 20486120]; doi: [https://dx.doi.org/10.1002/pmic.201000126 10.1002/pmic.201000126]; GPMDB: [http://gpmdb.org/data/keyword/20486120 2].
#Breitkreutz A, Choi H, Sharom JR, Boucher L, Neduva V, Larsen B, Lin ZY, Breitkreutz BJ, Stark C, Liu G, Ahn J, Dewar-Darch D, Reguly T, Tang X, Almeida R, Qin ZS, Pawson T, Gingras AC, Nesvizhskii AI, Tyers M,  (2010) &quot;A global protein kinase and phosphatase interaction network in yeast.&quot; <i>Science</i> <b>328</b>(5981):1043&ndash;6; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20489023 20489023]; doi: [https://dx.doi.org/10.1126/science.1176495 10.1126/science.1176495]; GPMDB: [http://gpmdb.org/data/keyword/20489023 571].
#Breitkreutz A, Choi H, Sharom JR, Boucher L, Neduva V, Larsen B, Lin ZY, Breitkreutz BJ, Stark C, Liu G, Ahn J, Dewar-Darch D, Reguly T, Tang X, Almeida R, Qin ZS, Pawson T, Gingras AC, Nesvizhskii AI, Tyers M,  (2010) &quot;A global protein kinase and phosphatase interaction network in yeast.&quot; <i>Science</i> <b>328</b>(5981):1043&ndash;6; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20489023 20489023]; doi: [https://dx.doi.org/10.1126/science.1176495 10.1126/science.1176495]; GPMDB: [http://gpmdb.org/data/keyword/20489023 571].
#Pelletier S, Schuurman KG, Berkers CR, Ovaa H, Heck AJ, Raijmakers R,  (2010) &quot;Quantifying cross-tissue diversity in proteasome complexes by mass spectrometry.&quot; <i>Mol Biosyst</i> <b>6</b>(8):1450&ndash;3; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20498902 20498902]; doi: [https://dx.doi.org/10.1039/c004989a 10.1039/c004989a]; GPMDB: [http://gpmdb.org/data/keyword/20498902 24].
#Pelletier S, Schuurman KG, Berkers CR, Ovaa H, Heck AJ, Raijmakers R,  (2010) &quot;Quantifying cross-tissue diversity in proteasome complexes by mass spectrometry.&quot; <i>Mol Biosyst</i> <b>6</b>(8):1450&ndash;3; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20498902 20498902]; doi: [https://dx.doi.org/10.1039/c004989a 10.1039/c004989a]; GPMDB: [http://gpmdb.org/data/keyword/20498902 24].
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#Magdeldin S, Li H, Yoshida Y, Enany S, Zhang Y, Xu B, Fujinaka H, Yaoita E, Yamamoto T,  (2010) &quot;Comparison of two dimensional electrophoresis mouse colon proteomes before and after knocking out Aquaporin 8.&quot; <i>J Proteomics</i> <b>73</b>(10):2031&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20619372 20619372]; doi: [https://dx.doi.org/10.1016/j.jprot.2010.06.010 10.1016/j.jprot.2010.06.010]; GPMDB: [http://gpmdb.org/data/keyword/20619372 5].
#Magdeldin S, Li H, Yoshida Y, Enany S, Zhang Y, Xu B, Fujinaka H, Yaoita E, Yamamoto T,  (2010) &quot;Comparison of two dimensional electrophoresis mouse colon proteomes before and after knocking out Aquaporin 8.&quot; <i>J Proteomics</i> <b>73</b>(10):2031&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20619372 20619372]; doi: [https://dx.doi.org/10.1016/j.jprot.2010.06.010 10.1016/j.jprot.2010.06.010]; GPMDB: [http://gpmdb.org/data/keyword/20619372 5].
#Andrews G, Lewis D, Notey J, Kelly R, Muddiman D,  (2010) &quot;Part I: characterization of the extracellular proteome of the extreme thermophile Caldicellulosiruptor saccharolyticus by GeLC-MS2.&quot; <i>Anal Bioanal Chem</i> <b>398</b>(1):377&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20623222 20623222]; doi: [https://dx.doi.org/10.1007/s00216-010-3955-6 10.1007/s00216-010-3955-6]; GPMDB: [http://gpmdb.org/data/keyword/20623222 58].
#Andrews G, Lewis D, Notey J, Kelly R, Muddiman D,  (2010) &quot;Part I: characterization of the extracellular proteome of the extreme thermophile Caldicellulosiruptor saccharolyticus by GeLC-MS2.&quot; <i>Anal Bioanal Chem</i> <b>398</b>(1):377&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20623222 20623222]; doi: [https://dx.doi.org/10.1007/s00216-010-3955-6 10.1007/s00216-010-3955-6]; GPMDB: [http://gpmdb.org/data/keyword/20623222 58].
-
#Impens F, Colaert N, Helsens K, Ghesquière B, Timmerman E, De Bock PJ, Chain BM, Vandekerckhove J, Gevaert K,  (2010) &quot;A quantitative proteomics design for systematic identification of protease cleavage events.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(10):2327&ndash;33; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20627866 20627866]; doi: [https://dx.doi.org/10.1074/mcp.M110.001271 10.1074/mcp.M110.001271]; GPMDB: [http://gpmdb.org/data/keyword/20627866 3].
+
#Impens F, Colaert N, Helsens K, Ghesquière B, Timmerman E, De Bock PJ, Chain BM, Vandekerckhove J, Gevaert K,  (2010) &quot;A quantitative proteomics design for systematic identification of protease cleavage events.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(10):2327&ndash;33; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20627866 20627866]; doi: [https://dx.doi.org/10.1074/mcp.M110.001271 10.1074/mcp.M110.001271]; GPMDB: [http://gpmdb.org/data/keyword/20627866 3].
-
#Mäusbacher N, Schreiber TB, Daub H,  (2010) &quot;Glycoprotein capture and quantitative phosphoproteomics indicate coordinated regulation of cell migration upon lysophosphatidic acid stimulation.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(11):2337&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20639409 20639409]; doi: [https://dx.doi.org/10.1074/mcp.M110.000737 10.1074/mcp.M110.000737]; GPMDB: [http://gpmdb.org/data/keyword/20639409 70].
+
#Mäusbacher N, Schreiber TB, Daub H,  (2010) &quot;Glycoprotein capture and quantitative phosphoproteomics indicate coordinated regulation of cell migration upon lysophosphatidic acid stimulation.&quot; <i>Mol Cell Proteomics</i> <b>9</b>(11):2337&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20639409 20639409]; doi: [https://dx.doi.org/10.1074/mcp.M110.000737 10.1074/mcp.M110.000737]; GPMDB: [http://gpmdb.org/data/keyword/20639409 70].
#Xu G, Paige JS, Jaffrey SR,  (2010) &quot;Global analysis of lysine ubiquitination by ubiquitin remnant immunoaffinity profiling.&quot; <i>Nat Biotechnol</i> <b>28</b>(8):868&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20639865 20639865]; doi: [https://dx.doi.org/10.1038/nbt.1654 10.1038/nbt.1654]; GPMDB: [http://gpmdb.org/data/keyword/20639865 2].
#Xu G, Paige JS, Jaffrey SR,  (2010) &quot;Global analysis of lysine ubiquitination by ubiquitin remnant immunoaffinity profiling.&quot; <i>Nat Biotechnol</i> <b>28</b>(8):868&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20639865 20639865]; doi: [https://dx.doi.org/10.1038/nbt.1654 10.1038/nbt.1654]; GPMDB: [http://gpmdb.org/data/keyword/20639865 2].
#Tu C, Rudnick PA, Martinez MY, Cheek KL, Stein SE, Slebos RJ, Liebler DC,  (2010) &quot;Depletion of abundant plasma proteins and limitations of plasma proteomics.&quot; <i>J Proteome Res</i> <b>9</b>(10):4982&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20677825 20677825]; doi: [https://dx.doi.org/10.1021/pr100646w 10.1021/pr100646w]; GPMDB: [http://gpmdb.org/data/keyword/20677825 207].
#Tu C, Rudnick PA, Martinez MY, Cheek KL, Stein SE, Slebos RJ, Liebler DC,  (2010) &quot;Depletion of abundant plasma proteins and limitations of plasma proteomics.&quot; <i>J Proteome Res</i> <b>9</b>(10):4982&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20677825 20677825]; doi: [https://dx.doi.org/10.1021/pr100646w 10.1021/pr100646w]; GPMDB: [http://gpmdb.org/data/keyword/20677825 207].
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#Dedieu A, Gaillard JC, Pourcher T, Darrouzet E, Armengaud J,  (2011) &quot;Revisiting iodination sites in thyroglobulin with an organ-oriented shotgun strategy.&quot; <i>J Biol Chem</i> <b>286</b>(1):259&ndash;69; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20978121 20978121]; doi: [https://dx.doi.org/10.1074/jbc.M110.159483 10.1074/jbc.M110.159483]; GPMDB: [http://gpmdb.org/data/keyword/20978121 14].
#Dedieu A, Gaillard JC, Pourcher T, Darrouzet E, Armengaud J,  (2011) &quot;Revisiting iodination sites in thyroglobulin with an organ-oriented shotgun strategy.&quot; <i>J Biol Chem</i> <b>286</b>(1):259&ndash;69; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/20978121 20978121]; doi: [https://dx.doi.org/10.1074/jbc.M110.159483 10.1074/jbc.M110.159483]; GPMDB: [http://gpmdb.org/data/keyword/20978121 14].
#Bartke T, Vermeulen M, Xhemalce B, Robson SC, Mann M, Kouzarides T,  (2010) &quot;Nucleosome-interacting proteins regulated by DNA and histone methylation.&quot; <i>Cell</i> <b>143</b>(3):470&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21029866 21029866]; doi: [https://dx.doi.org/10.1016/j.cell.2010.10.012 10.1016/j.cell.2010.10.012]; GPMDB: [http://gpmdb.org/data/keyword/21029866 160].
#Bartke T, Vermeulen M, Xhemalce B, Robson SC, Mann M, Kouzarides T,  (2010) &quot;Nucleosome-interacting proteins regulated by DNA and histone methylation.&quot; <i>Cell</i> <b>143</b>(3):470&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21029866 21029866]; doi: [https://dx.doi.org/10.1016/j.cell.2010.10.012 10.1016/j.cell.2010.10.012]; GPMDB: [http://gpmdb.org/data/keyword/21029866 160].
-
#de Souza GA, Arntzen , Fortuin S, Schürch AC, Målen H, McEvoy CR, van Soolingen D, Thiede B, Warren RM, Wiker HG,  (2011) &quot;Proteogenomic analysis of polymorphisms and gene annotation divergences in prokaryotes using a clustered mass spectrometry-friendly database.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(1):M110.002527; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21030493 21030493]; doi: [https://dx.doi.org/10.1074/mcp.M110.002527 10.1074/mcp.M110.002527]; GPMDB: [http://gpmdb.org/data/keyword/21030493 6].
+
#de Souza GA, Arntzen MØ, Fortuin S, Schürch AC, MÃ¥len H, McEvoy CR, van Soolingen D, Thiede B, Warren RM, Wiker HG,  (2011) &quot;Proteogenomic analysis of polymorphisms and gene annotation divergences in prokaryotes using a clustered mass spectrometry-friendly database.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(1):M110.002527; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21030493 21030493]; doi: [https://dx.doi.org/10.1074/mcp.M110.002527 10.1074/mcp.M110.002527]; GPMDB: [http://gpmdb.org/data/keyword/21030493 6].
#Murray CI, Kane LA, Uhrigshardt H, Wang SB, Van Eyk JE,  (2011) &quot;Site-mapping of in vitro S-nitrosation in cardiac mitochondria: implications for cardioprotection.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(3):M110.004721; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21036925 21036925]; doi: [https://dx.doi.org/10.1074/mcp.M110.004721 10.1074/mcp.M110.004721]; GPMDB: [http://gpmdb.org/data/keyword/21036925 36].
#Murray CI, Kane LA, Uhrigshardt H, Wang SB, Van Eyk JE,  (2011) &quot;Site-mapping of in vitro S-nitrosation in cardiac mitochondria: implications for cardioprotection.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(3):M110.004721; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21036925 21036925]; doi: [https://dx.doi.org/10.1074/mcp.M110.004721 10.1074/mcp.M110.004721]; GPMDB: [http://gpmdb.org/data/keyword/21036925 36].
#Walther DM, Mann M,  (2011) &quot;Accurate quantification of more than 4000 mouse tissue proteins reveals minimal proteome changes during aging.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(2):M110.004523; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21048193 21048193]; doi: [https://dx.doi.org/10.1074/mcp.M110.004523 10.1074/mcp.M110.004523]; GPMDB: [http://gpmdb.org/data/keyword/21048193 119].
#Walther DM, Mann M,  (2011) &quot;Accurate quantification of more than 4000 mouse tissue proteins reveals minimal proteome changes during aging.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(2):M110.004523; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21048193 21048193]; doi: [https://dx.doi.org/10.1074/mcp.M110.004523 10.1074/mcp.M110.004523]; GPMDB: [http://gpmdb.org/data/keyword/21048193 119].
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#Helbig AO, Rosati S, Pijnappel PW, van Breukelen B, Timmers MH, Mohammed S, Slijper M, Heck AJ,  (2010) &quot;Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.&quot; <i>BMC Genomics</i> <b>11</b>:685; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21126336 21126336]; doi: [https://dx.doi.org/10.1186/1471-2164-11-685 10.1186/1471-2164-11-685]; GPMDB: [http://gpmdb.org/data/keyword/21126336 10].
#Helbig AO, Rosati S, Pijnappel PW, van Breukelen B, Timmers MH, Mohammed S, Slijper M, Heck AJ,  (2010) &quot;Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.&quot; <i>BMC Genomics</i> <b>11</b>:685; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21126336 21126336]; doi: [https://dx.doi.org/10.1186/1471-2164-11-685 10.1186/1471-2164-11-685]; GPMDB: [http://gpmdb.org/data/keyword/21126336 10].
#Fan C, Fu Z, Su Q, Angelini DJ, Van Eyk J, Johns RA,  (2011) &quot;S100A11 mediates hypoxia-induced mitogenic factor (HIMF)-induced smooth muscle cell migration, vesicular exocytosis, and nuclear activation.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(3):M110.000901; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21139050 21139050]; doi: [https://dx.doi.org/10.1074/mcp.M110.000901 10.1074/mcp.M110.000901]; GPMDB: [http://gpmdb.org/data/keyword/21139050 13].
#Fan C, Fu Z, Su Q, Angelini DJ, Van Eyk J, Johns RA,  (2011) &quot;S100A11 mediates hypoxia-induced mitogenic factor (HIMF)-induced smooth muscle cell migration, vesicular exocytosis, and nuclear activation.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(3):M110.000901; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21139050 21139050]; doi: [https://dx.doi.org/10.1074/mcp.M110.000901 10.1074/mcp.M110.000901]; GPMDB: [http://gpmdb.org/data/keyword/21139050 13].
-
#Skirycz A, Memmi S, De Bodt S, Maleux K, Obata T, Fernie AR, Devreese B, Inzé D,  (2011) &quot;A reciprocal 15N-labeling proteomic analysis of expanding Arabidopsis leaves subjected to osmotic stress indicates importance of mitochondria in preserving plastid functions.&quot; <i>J Proteome Res</i> <b>10</b>(3):1018&ndash;29; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21142212 21142212]; doi: [https://dx.doi.org/10.1021/pr100785n 10.1021/pr100785n]; GPMDB: [http://gpmdb.org/data/keyword/21142212 476].
+
#Skirycz A, Memmi S, De Bodt S, Maleux K, Obata T, Fernie AR, Devreese B, Inzé D,  (2011) &quot;A reciprocal 15N-labeling proteomic analysis of expanding Arabidopsis leaves subjected to osmotic stress indicates importance of mitochondria in preserving plastid functions.&quot; <i>J Proteome Res</i> <b>10</b>(3):1018&ndash;29; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21142212 21142212]; doi: [https://dx.doi.org/10.1021/pr100785n 10.1021/pr100785n]; GPMDB: [http://gpmdb.org/data/keyword/21142212 476].
-
#Mestdagh P, Boström AK, Impens F, Fredlund E, Van Peer G, De Antonellis P, von Stedingk K, Ghesquière B, Schulte S, Dews M, Thomas-Tikhonenko A, Schulte JH, Zollo M, Schramm A, Gevaert K, Axelson H, Speleman F, Vandesompele J,  (2010) &quot;The miR-17-92 microRNA cluster regulates multiple components of the TGF-β pathway in neuroblastoma.&quot; <i>Mol Cell</i> <b>40</b>(5):762&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21145484 21145484]; doi: [https://dx.doi.org/10.1016/j.molcel.2010.11.038 10.1016/j.molcel.2010.11.038]; GPMDB: [http://gpmdb.org/data/keyword/21145484 1].
+
#Mestdagh P, Boström AK, Impens F, Fredlund E, Van Peer G, De Antonellis P, von Stedingk K, Ghesquière B, Schulte S, Dews M, Thomas-Tikhonenko A, Schulte JH, Zollo M, Schramm A, Gevaert K, Axelson H, Speleman F, Vandesompele J,  (2010) &quot;The miR-17-92 microRNA cluster regulates multiple components of the TGF-β pathway in neuroblastoma.&quot; <i>Mol Cell</i> <b>40</b>(5):762&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21145484 21145484]; doi: [https://dx.doi.org/10.1016/j.molcel.2010.11.038 10.1016/j.molcel.2010.11.038]; GPMDB: [http://gpmdb.org/data/keyword/21145484 1].
#Li QR, Xing XB, Chen TT, Li RX, Dai J, Sheng QH, Xin SM, Zhu LL, Jin Y, Pei G, Kang JH, Li YX, Zeng R,  (2011) &quot;Large scale phosphoproteome profiles comprehensive features of mouse embryonic stem cells.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(4):M110.001750; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21149613 21149613]; doi: [https://dx.doi.org/10.1074/mcp.M110.001750 10.1074/mcp.M110.001750]; GPMDB: [http://gpmdb.org/data/keyword/21149613 12].
#Li QR, Xing XB, Chen TT, Li RX, Dai J, Sheng QH, Xin SM, Zhu LL, Jin Y, Pei G, Kang JH, Li YX, Zeng R,  (2011) &quot;Large scale phosphoproteome profiles comprehensive features of mouse embryonic stem cells.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(4):M110.001750; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21149613 21149613]; doi: [https://dx.doi.org/10.1074/mcp.M110.001750 10.1074/mcp.M110.001750]; GPMDB: [http://gpmdb.org/data/keyword/21149613 12].
#Ito J, Batth TS, Petzold CJ, Redding-Johanson AM, Mukhopadhyay A, Verboom R, Meyer EH, Millar AH, Heazlewood JL,  (2011) &quot;Analysis of the Arabidopsis cytosolic proteome highlights subcellular partitioning of central plant metabolism.&quot; <i>J Proteome Res</i> <b>10</b>(4):1571&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21166475 21166475]; doi: [https://dx.doi.org/10.1021/pr1009433 10.1021/pr1009433]; GPMDB: [http://gpmdb.org/data/keyword/21166475 3].
#Ito J, Batth TS, Petzold CJ, Redding-Johanson AM, Mukhopadhyay A, Verboom R, Meyer EH, Millar AH, Heazlewood JL,  (2011) &quot;Analysis of the Arabidopsis cytosolic proteome highlights subcellular partitioning of central plant metabolism.&quot; <i>J Proteome Res</i> <b>10</b>(4):1571&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21166475 21166475]; doi: [https://dx.doi.org/10.1021/pr1009433 10.1021/pr1009433]; GPMDB: [http://gpmdb.org/data/keyword/21166475 3].
#Lee JE, Sweredoski MJ, Graham RL, Kolawa NJ, Smith GT, Hess S, Deshaies RJ,  (2011) &quot;The steady-state repertoire of human SCF ubiquitin ligase complexes does not require ongoing Nedd8 conjugation.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(5):M110.006460; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21169563 21169563]; doi: [https://dx.doi.org/10.1074/mcp.M110.006460 10.1074/mcp.M110.006460]; GPMDB: [http://gpmdb.org/data/keyword/21169563 41].
#Lee JE, Sweredoski MJ, Graham RL, Kolawa NJ, Smith GT, Hess S, Deshaies RJ,  (2011) &quot;The steady-state repertoire of human SCF ubiquitin ligase complexes does not require ongoing Nedd8 conjugation.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(5):M110.006460; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21169563 21169563]; doi: [https://dx.doi.org/10.1074/mcp.M110.006460 10.1074/mcp.M110.006460]; GPMDB: [http://gpmdb.org/data/keyword/21169563 41].
-
#Huttlin EL, Jedrychowski MP, Elias JE, Goswami T, Rad R, Beausoleil SA, Villén J, Haas W, Sowa ME, Gygi SP,  (2010) &quot;A tissue-specific atlas of mouse protein phosphorylation and expression.&quot; <i>Cell</i> <b>143</b>(7):1174&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21183079 21183079]; doi: [https://dx.doi.org/10.1016/j.cell.2010.12.001 10.1016/j.cell.2010.12.001]; GPMDB: [http://gpmdb.org/data/keyword/21183079 313].
+
#Huttlin EL, Jedrychowski MP, Elias JE, Goswami T, Rad R, Beausoleil SA, Villén J, Haas W, Sowa ME, Gygi SP,  (2010) &quot;A tissue-specific atlas of mouse protein phosphorylation and expression.&quot; <i>Cell</i> <b>143</b>(7):1174&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21183079 21183079]; doi: [https://dx.doi.org/10.1016/j.cell.2010.12.001 10.1016/j.cell.2010.12.001]; GPMDB: [http://gpmdb.org/data/keyword/21183079 313].
#Brockmeyer C, Paster W, Pepper D, Tan CP, Trudgian DC, McGowan S, Fu G, Gascoigne NR, Acuto O, Salek M,  (2011) &quot;T cell receptor (TCR)-induced tyrosine phosphorylation dynamics identifies THEMIS as a new TCR signalosome component.&quot; <i>J Biol Chem</i> <b>286</b>(9):7535&ndash;47; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21189249 21189249]; doi: [https://dx.doi.org/10.1074/jbc.M110.201236 10.1074/jbc.M110.201236]; GPMDB: [http://gpmdb.org/data/keyword/21189249 4].
#Brockmeyer C, Paster W, Pepper D, Tan CP, Trudgian DC, McGowan S, Fu G, Gascoigne NR, Acuto O, Salek M,  (2011) &quot;T cell receptor (TCR)-induced tyrosine phosphorylation dynamics identifies THEMIS as a new TCR signalosome component.&quot; <i>J Biol Chem</i> <b>286</b>(9):7535&ndash;47; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21189249 21189249]; doi: [https://dx.doi.org/10.1074/jbc.M110.201236 10.1074/jbc.M110.201236]; GPMDB: [http://gpmdb.org/data/keyword/21189249 4].
#Manes NP, Dong L, Zhou W, Du X, Reghu N, Kool AC, Choi D, Bailey CL, Petricoin EF 3rd, Liotta LA, Popov SG,  (2011) &quot;Discovery of mouse spleen signaling responses to anthrax using label-free quantitative phosphoproteomics via mass spectrometry.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(3):M110.000927; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21189417 21189417]; doi: [https://dx.doi.org/10.1074/mcp.M110.000927 10.1074/mcp.M110.000927]; GPMDB: [http://gpmdb.org/data/keyword/21189417 66].
#Manes NP, Dong L, Zhou W, Du X, Reghu N, Kool AC, Choi D, Bailey CL, Petricoin EF 3rd, Liotta LA, Popov SG,  (2011) &quot;Discovery of mouse spleen signaling responses to anthrax using label-free quantitative phosphoproteomics via mass spectrometry.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(3):M110.000927; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21189417 21189417]; doi: [https://dx.doi.org/10.1074/mcp.M110.000927 10.1074/mcp.M110.000927]; GPMDB: [http://gpmdb.org/data/keyword/21189417 66].
#Hansson J, Panchaud A, Favre L, Bosco N, Mansourian R, Benyacoub J, Blum S, Jensen ON, Kussmann M,  (2011) &quot;Time-resolved quantitative proteome analysis of in vivo intestinal development.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(3):M110.005231; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21191033 21191033]; doi: [https://dx.doi.org/10.1074/mcp.M110.005231 10.1074/mcp.M110.005231]; GPMDB: [http://gpmdb.org/data/keyword/21191033 48].
#Hansson J, Panchaud A, Favre L, Bosco N, Mansourian R, Benyacoub J, Blum S, Jensen ON, Kussmann M,  (2011) &quot;Time-resolved quantitative proteome analysis of in vivo intestinal development.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(3):M110.005231; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21191033 21191033]; doi: [https://dx.doi.org/10.1074/mcp.M110.005231 10.1074/mcp.M110.005231]; GPMDB: [http://gpmdb.org/data/keyword/21191033 48].
#Singh SK, Lakshmi MG, Saxena S, Swamy CV, Idris MM,  (2011) &quot;Proteome profile of zebrafish caudal fin based on one-dimensional gel electrophoresis LCMS/MS and two-dimensional gel electrophoresis MALDI MS/MS analysis.&quot; <i>J Sep Sci</i> <b>34</b>(2):225&ndash;32; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21246729 21246729]; doi: [https://dx.doi.org/10.1002/jssc.201000626 10.1002/jssc.201000626]; GPMDB: [http://gpmdb.org/data/keyword/21246729 17].
#Singh SK, Lakshmi MG, Saxena S, Swamy CV, Idris MM,  (2011) &quot;Proteome profile of zebrafish caudal fin based on one-dimensional gel electrophoresis LCMS/MS and two-dimensional gel electrophoresis MALDI MS/MS analysis.&quot; <i>J Sep Sci</i> <b>34</b>(2):225&ndash;32; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21246729 21246729]; doi: [https://dx.doi.org/10.1002/jssc.201000626 10.1002/jssc.201000626]; GPMDB: [http://gpmdb.org/data/keyword/21246729 17].
-
#Bantscheff M, Hopf C, Savitski MM, Dittmann A, Grandi P, Michon AM, Schlegl J, Abraham Y, Becher I, Bergamini G, Boesche M, Delling M, Dümpelfeld B, Eberhard D, Huthmacher C, Mathieson T, Poeckel D, Reader V, Strunk K, Sweetman G, Kruse U, Neubauer G, Ramsden NG, Drewes G,  (2011) &quot;Chemoproteomics profiling of HDAC inhibitors reveals selective targeting of HDAC complexes.&quot; <i>Nat Biotechnol</i> <b>29</b>(3):255&ndash;65; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21258344 21258344]; doi: [https://dx.doi.org/10.1038/nbt.1759 10.1038/nbt.1759]; GPMDB: [http://gpmdb.org/data/keyword/21258344 128].
+
#Bantscheff M, Hopf C, Savitski MM, Dittmann A, Grandi P, Michon AM, Schlegl J, Abraham Y, Becher I, Bergamini G, Boesche M, Delling M, Dümpelfeld B, Eberhard D, Huthmacher C, Mathieson T, Poeckel D, Reader V, Strunk K, Sweetman G, Kruse U, Neubauer G, Ramsden NG, Drewes G,  (2011) &quot;Chemoproteomics profiling of HDAC inhibitors reveals selective targeting of HDAC complexes.&quot; <i>Nat Biotechnol</i> <b>29</b>(3):255&ndash;65; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21258344 21258344]; doi: [https://dx.doi.org/10.1038/nbt.1759 10.1038/nbt.1759]; GPMDB: [http://gpmdb.org/data/keyword/21258344 128].
#Baerenfaller K, Hirsch-Hoffmann M, Svozil J, Hull R, Russenberger D, Bischof S, Lu Q, Gruissem W, Baginsky S,  (2011) &quot;pep2pro: a new tool for comprehensive proteome data analysis to reveal information about organ-specific proteomes in Arabidopsis thaliana.&quot; <i>Integr Biol (Camb)</i> <b>3</b>(3):225&ndash;37; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21264403 21264403]; doi: [https://dx.doi.org/10.1039/c0ib00078g 10.1039/c0ib00078g]; GPMDB: [http://gpmdb.org/data/keyword/21264403 64].
#Baerenfaller K, Hirsch-Hoffmann M, Svozil J, Hull R, Russenberger D, Bischof S, Lu Q, Gruissem W, Baginsky S,  (2011) &quot;pep2pro: a new tool for comprehensive proteome data analysis to reveal information about organ-specific proteomes in Arabidopsis thaliana.&quot; <i>Integr Biol (Camb)</i> <b>3</b>(3):225&ndash;37; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21264403 21264403]; doi: [https://dx.doi.org/10.1039/c0ib00078g 10.1039/c0ib00078g]; GPMDB: [http://gpmdb.org/data/keyword/21264403 64].
-
#Otto A, Bernhardt J, Meyer H, Schaffer M, Herbst FA, Siebourg J, Mäder U, Lalk M, Hecker M, Becher D,  (2010) &quot;Systems-wide temporal proteomic profiling in glucose-starved Bacillus subtilis.&quot; <i>Nat Commun</i> <b>1</b>:137; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21266987 21266987]; doi: [https://dx.doi.org/10.1038/ncomms1137 10.1038/ncomms1137]; GPMDB: [http://gpmdb.org/data/keyword/21266987 76].
+
#Otto A, Bernhardt J, Meyer H, Schaffer M, Herbst FA, Siebourg J, Mäder U, Lalk M, Hecker M, Becher D,  (2010) &quot;Systems-wide temporal proteomic profiling in glucose-starved Bacillus subtilis.&quot; <i>Nat Commun</i> <b>1</b>:137; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21266987 21266987]; doi: [https://dx.doi.org/10.1038/ncomms1137 10.1038/ncomms1137]; GPMDB: [http://gpmdb.org/data/keyword/21266987 76].
-
#Burkard TR, Planyavsky M, Kaupe I, Breitwieser FP, Bürckstümmer T, Bennett KL, Superti-Furga G, Colinge J,  (2011) &quot;Initial characterization of the human central proteome.&quot; <i>BMC Syst Biol</i> <b>5</b>:17; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21269460 21269460]; doi: [https://dx.doi.org/10.1186/1752-0509-5-17 10.1186/1752-0509-5-17]; GPMDB: [http://gpmdb.org/data/keyword/21269460 99].
+
#Burkard TR, Planyavsky M, Kaupe I, Breitwieser FP, Bürckstümmer T, Bennett KL, Superti-Furga G, Colinge J,  (2011) &quot;Initial characterization of the human central proteome.&quot; <i>BMC Syst Biol</i> <b>5</b>:17; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21269460 21269460]; doi: [https://dx.doi.org/10.1186/1752-0509-5-17 10.1186/1752-0509-5-17]; GPMDB: [http://gpmdb.org/data/keyword/21269460 99].
-
#Smith CR, Smith CD, Robertson HM, Helmkampf M, Zimin A, Yandell M, Holt C, Hu H, Abouheif E, Benton R, Cash E, Croset V, Currie CR, Elhaik E, Elsik CG, Favé MJ, Fernandes V, Gibson JD, Graur D, Gronenberg W, Grubbs KJ, Hagen DE, Viniegra AS, Johnson BR, Johnson RM, Khila A, Kim JW, Mathis KA, Munoz-Torres MC, Murphy MC, Mustard JA, Nakamura R, Niehuis O, Nigam S, Overson RP, Placek JE, Rajakumar R, Reese JT, Suen G, Tao S, Torres CW, Tsutsui ND, Viljakainen L, Wolschin F, Gadau J,  (2011) &quot;Draft genome of the red harvester ant Pogonomyrmex barbatus.&quot; <i>Proc Natl Acad Sci U S A</i> <b>108</b>(14):5667&ndash;72; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21282651 21282651]; doi: [https://dx.doi.org/10.1073/pnas.1007901108 10.1073/pnas.1007901108]; GPMDB: [http://gpmdb.org/data/keyword/21282651 2].
+
#Smith CR, Smith CD, Robertson HM, Helmkampf M, Zimin A, Yandell M, Holt C, Hu H, Abouheif E, Benton R, Cash E, Croset V, Currie CR, Elhaik E, Elsik CG, Favé MJ, Fernandes V, Gibson JD, Graur D, Gronenberg W, Grubbs KJ, Hagen DE, Viniegra AS, Johnson BR, Johnson RM, Khila A, Kim JW, Mathis KA, Munoz-Torres MC, Murphy MC, Mustard JA, Nakamura R, Niehuis O, Nigam S, Overson RP, Placek JE, Rajakumar R, Reese JT, Suen G, Tao S, Torres CW, Tsutsui ND, Viljakainen L, Wolschin F, Gadau J,  (2011) &quot;Draft genome of the red harvester ant Pogonomyrmex barbatus.&quot; <i>Proc Natl Acad Sci U S A</i> <b>108</b>(14):5667&ndash;72; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21282651 21282651]; doi: [https://dx.doi.org/10.1073/pnas.1007901108 10.1073/pnas.1007901108]; GPMDB: [http://gpmdb.org/data/keyword/21282651 2].
#Michalski A, Cox J, Mann M,  (2011) &quot;More than 100,000 detectable peptide species elute in single shotgun proteomics runs but the majority is inaccessible to data-dependent LC-MS/MS.&quot; <i>J Proteome Res</i> <b>10</b>(4):1785&ndash;93; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21309581 21309581]; doi: [https://dx.doi.org/10.1021/pr101060v 10.1021/pr101060v]; GPMDB: [http://gpmdb.org/data/keyword/21309581 3].
#Michalski A, Cox J, Mann M,  (2011) &quot;More than 100,000 detectable peptide species elute in single shotgun proteomics runs but the majority is inaccessible to data-dependent LC-MS/MS.&quot; <i>J Proteome Res</i> <b>10</b>(4):1785&ndash;93; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21309581 21309581]; doi: [https://dx.doi.org/10.1021/pr101060v 10.1021/pr101060v]; GPMDB: [http://gpmdb.org/data/keyword/21309581 3].
#Lahtvee PJ, Adamberg K, Arike L, Nahku R, Aller K, Vilu R,  (2011) &quot;Multi-omics approach to study the growth efficiency and amino acid metabolism in Lactococcus lactis at various specific growth rates.&quot; <i>Microb Cell Fact</i> <b>10</b>:12; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21349178 21349178]; doi: [https://dx.doi.org/10.1186/1475-2859-10-12 10.1186/1475-2859-10-12]; GPMDB: [http://gpmdb.org/data/keyword/21349178 64].
#Lahtvee PJ, Adamberg K, Arike L, Nahku R, Aller K, Vilu R,  (2011) &quot;Multi-omics approach to study the growth efficiency and amino acid metabolism in Lactococcus lactis at various specific growth rates.&quot; <i>Microb Cell Fact</i> <b>10</b>:12; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21349178 21349178]; doi: [https://dx.doi.org/10.1186/1475-2859-10-12 10.1186/1475-2859-10-12]; GPMDB: [http://gpmdb.org/data/keyword/21349178 64].
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#Marimuthu A, O'Meally RN, Chaerkady R, Subbannayya Y, Nanjappa V, Kumar P, Kelkar DS, Pinto SM, Sharma R, Renuse S, Goel R, Christopher R, Delanghe B, Cole RN, Harsha HC, Pandey A,  (2011) &quot;A comprehensive map of the human urinary proteome.&quot; <i>J Proteome Res</i> <b>10</b>(6):2734&ndash;43; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21500864 21500864]; doi: [https://dx.doi.org/10.1021/pr2003038 10.1021/pr2003038]; GPMDB: [http://gpmdb.org/data/keyword/21500864 28].
#Marimuthu A, O'Meally RN, Chaerkady R, Subbannayya Y, Nanjappa V, Kumar P, Kelkar DS, Pinto SM, Sharma R, Renuse S, Goel R, Christopher R, Delanghe B, Cole RN, Harsha HC, Pandey A,  (2011) &quot;A comprehensive map of the human urinary proteome.&quot; <i>J Proteome Res</i> <b>10</b>(6):2734&ndash;43; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21500864 21500864]; doi: [https://dx.doi.org/10.1021/pr2003038 10.1021/pr2003038]; GPMDB: [http://gpmdb.org/data/keyword/21500864 28].
#Ma ZQ, Chambers MC, Ham AJ, Cheek KL, Whitwell CW, Aerni HR, Schilling B, Miller AW, Caprioli RM, Tabb DL,  (2011) &quot;ScanRanker: Quality assessment of tandem mass spectra via sequence tagging.&quot; <i>J Proteome Res</i> <b>10</b>(7):2896&ndash;904; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21520941 21520941]; doi: [https://dx.doi.org/10.1021/pr200118r 10.1021/pr200118r]; GPMDB: [http://gpmdb.org/data/keyword/21520941 9].
#Ma ZQ, Chambers MC, Ham AJ, Cheek KL, Whitwell CW, Aerni HR, Schilling B, Miller AW, Caprioli RM, Tabb DL,  (2011) &quot;ScanRanker: Quality assessment of tandem mass spectra via sequence tagging.&quot; <i>J Proteome Res</i> <b>10</b>(7):2896&ndash;904; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21520941 21520941]; doi: [https://dx.doi.org/10.1021/pr200118r 10.1021/pr200118r]; GPMDB: [http://gpmdb.org/data/keyword/21520941 9].
-
#Adamidi C, Wang Y, Gruen D, Mastrobuoni G, You X, Tolle D, Dodt M, Mackowiak SD, Gogol-Doering A, Oenal P, Rybak A, Ross E, Sánchez Alvarado A, Kempa S, Dieterich C, Rajewsky N, Chen W,  (2011) &quot;De novo assembly and validation of planaria transcriptome by massive parallel sequencing and shotgun proteomics.&quot; <i>Genome Res</i> <b>21</b>(7):1193&ndash;200; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21536722 21536722]; doi: [https://dx.doi.org/10.1101/gr.113779.110 10.1101/gr.113779.110]; GPMDB: [http://gpmdb.org/data/keyword/21536722 19].
+
#Adamidi C, Wang Y, Gruen D, Mastrobuoni G, You X, Tolle D, Dodt M, Mackowiak SD, Gogol-Doering A, Oenal P, Rybak A, Ross E, Sánchez Alvarado A, Kempa S, Dieterich C, Rajewsky N, Chen W,  (2011) &quot;De novo assembly and validation of planaria transcriptome by massive parallel sequencing and shotgun proteomics.&quot; <i>Genome Res</i> <b>21</b>(7):1193&ndash;200; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21536722 21536722]; doi: [https://dx.doi.org/10.1101/gr.113779.110 10.1101/gr.113779.110]; GPMDB: [http://gpmdb.org/data/keyword/21536722 19].
#Wu R, Dephoure N, Haas W, Huttlin EL, Zhai B, Sowa ME, Gygi SP,  (2011) &quot;Correct interpretation of comprehensive phosphorylation dynamics requires normalization by protein expression changes.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(8):M111.009654; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21551504 21551504]; doi: [https://dx.doi.org/10.1074/mcp.M111.009654 10.1074/mcp.M111.009654]; GPMDB: [http://gpmdb.org/data/keyword/21551504 15].
#Wu R, Dephoure N, Haas W, Huttlin EL, Zhai B, Sowa ME, Gygi SP,  (2011) &quot;Correct interpretation of comprehensive phosphorylation dynamics requires normalization by protein expression changes.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(8):M111.009654; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21551504 21551504]; doi: [https://dx.doi.org/10.1074/mcp.M111.009654 10.1074/mcp.M111.009654]; GPMDB: [http://gpmdb.org/data/keyword/21551504 15].
#de Poot SA, Westgeest M, Hostetter DR, Van Damme P, Plasman K, Demeyer K, Broekhuizen R, Gevaert K, Craik CS, Bovenschen N,  (2011) &quot;Human and mouse granzyme M display divergent and species-specific substrate specificities.&quot; <i>Biochem J</i> <b>437</b>(3):431&ndash;42; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21564021 21564021]; doi: [https://dx.doi.org/10.1042/BJ20110210 10.1042/BJ20110210]; GPMDB: [http://gpmdb.org/data/keyword/21564021 1].
#de Poot SA, Westgeest M, Hostetter DR, Van Damme P, Plasman K, Demeyer K, Broekhuizen R, Gevaert K, Craik CS, Bovenschen N,  (2011) &quot;Human and mouse granzyme M display divergent and species-specific substrate specificities.&quot; <i>Biochem J</i> <b>437</b>(3):431&ndash;42; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21564021 21564021]; doi: [https://dx.doi.org/10.1042/BJ20110210 10.1042/BJ20110210]; GPMDB: [http://gpmdb.org/data/keyword/21564021 1].
#Overton IM, Graham S, Gould KA, Hinds J, Botting CH, Shirran S, Barton GJ, Coote PJ,  (2011) &quot;Global network analysis of drug tolerance, mode of action and virulence in methicillin-resistant S. aureus.&quot; <i>BMC Syst Biol</i> <b>5</b>:68; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21569391 21569391]; doi: [https://dx.doi.org/10.1186/1752-0509-5-68 10.1186/1752-0509-5-68]; GPMDB: [http://gpmdb.org/data/keyword/21569391 10].
#Overton IM, Graham S, Gould KA, Hinds J, Botting CH, Shirran S, Barton GJ, Coote PJ,  (2011) &quot;Global network analysis of drug tolerance, mode of action and virulence in methicillin-resistant S. aureus.&quot; <i>BMC Syst Biol</i> <b>5</b>:68; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21569391 21569391]; doi: [https://dx.doi.org/10.1186/1752-0509-5-68 10.1186/1752-0509-5-68]; GPMDB: [http://gpmdb.org/data/keyword/21569391 10].
-
#Thakur SS, Geiger T, Chatterjee B, Bandilla P, Fröhlich F, Cox J, Mann M,  (2011) &quot;Deep and highly sensitive proteome coverage by LC-MS/MS without prefractionation.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(8):M110.003699; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21586754 21586754]; doi: [https://dx.doi.org/10.1074/mcp.M110.003699 10.1074/mcp.M110.003699]; GPMDB: [http://gpmdb.org/data/keyword/21586754 21].
+
#Thakur SS, Geiger T, Chatterjee B, Bandilla P, Fröhlich F, Cox J, Mann M,  (2011) &quot;Deep and highly sensitive proteome coverage by LC-MS/MS without prefractionation.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(8):M110.003699; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21586754 21586754]; doi: [https://dx.doi.org/10.1074/mcp.M110.003699 10.1074/mcp.M110.003699]; GPMDB: [http://gpmdb.org/data/keyword/21586754 21].
#Didangelos A, Yin X, Mandal K, Saje A, Smith A, Xu Q, Jahangiri M, Mayr M,  (2011) &quot;Extracellular matrix composition and remodeling in human abdominal aortic aneurysms: a proteomics approach.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(8):M111.008128; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21593211 21593211]; doi: [https://dx.doi.org/10.1074/mcp.M111.008128 10.1074/mcp.M111.008128]; GPMDB: [http://gpmdb.org/data/keyword/21593211 168].
#Didangelos A, Yin X, Mandal K, Saje A, Smith A, Xu Q, Jahangiri M, Mayr M,  (2011) &quot;Extracellular matrix composition and remodeling in human abdominal aortic aneurysms: a proteomics approach.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(8):M111.008128; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21593211 21593211]; doi: [https://dx.doi.org/10.1074/mcp.M111.008128 10.1074/mcp.M111.008128]; GPMDB: [http://gpmdb.org/data/keyword/21593211 168].
-
#Schwanhäusser B, Busse D, Li N, Dittmar G, Schuchhardt J, Wolf J, Chen W, Selbach M,  (2011) &quot;Global quantification of mammalian gene expression control.&quot; <i>Nature</i> <b>473</b>(7347):337&ndash;42; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21593866 21593866]; doi: [https://dx.doi.org/10.1038/nature10098 10.1038/nature10098]; GPMDB: [http://gpmdb.org/data/keyword/21593866 61].
+
#Schwanhäusser B, Busse D, Li N, Dittmar G, Schuchhardt J, Wolf J, Chen W, Selbach M,  (2011) &quot;Global quantification of mammalian gene expression control.&quot; <i>Nature</i> <b>473</b>(7347):337&ndash;42; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21593866 21593866]; doi: [https://dx.doi.org/10.1038/nature10098 10.1038/nature10098]; GPMDB: [http://gpmdb.org/data/keyword/21593866 61].
#Kim MS, Zhong J, Kandasamy K, Delanghe B, Pandey A,  (2011) &quot;Systematic evaluation of alternating CID and ETD fragmentation for phosphorylated peptides.&quot; <i>Proteomics</i> <b>11</b>(12):2568&ndash;72; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21598390 21598390]; doi: [https://dx.doi.org/10.1002/pmic.201000547 10.1002/pmic.201000547]; GPMDB: [http://gpmdb.org/data/keyword/21598390 28].
#Kim MS, Zhong J, Kandasamy K, Delanghe B, Pandey A,  (2011) &quot;Systematic evaluation of alternating CID and ETD fragmentation for phosphorylated peptides.&quot; <i>Proteomics</i> <b>11</b>(12):2568&ndash;72; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21598390 21598390]; doi: [https://dx.doi.org/10.1002/pmic.201000547 10.1002/pmic.201000547]; GPMDB: [http://gpmdb.org/data/keyword/21598390 28].
-
#Mühlhaus T, Weiss J, Hemme D, Sommer F, Schroda M,  (2011) &quot;Quantitative shotgun proteomics using a uniform ¹⁵N-labeled standard to monitor proteome dynamics in time course experiments reveals new insights into the heat stress response of Chlamydomonas reinhardtii.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(9):M110.004739; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21610104 21610104]; doi: [https://dx.doi.org/10.1074/mcp.M110.004739 10.1074/mcp.M110.004739]; GPMDB: [http://gpmdb.org/data/keyword/21610104 2].
+
#Mühlhaus T, Weiss J, Hemme D, Sommer F, Schroda M,  (2011) &quot;Quantitative shotgun proteomics using a uniform ¹⁵N-labeled standard to monitor proteome dynamics in time course experiments reveals new insights into the heat stress response of Chlamydomonas reinhardtii.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(9):M110.004739; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21610104 21610104]; doi: [https://dx.doi.org/10.1074/mcp.M110.004739 10.1074/mcp.M110.004739]; GPMDB: [http://gpmdb.org/data/keyword/21610104 2].
#Shao H, Chaerkady R, Chen S, Pinto SM, Sharma R, Delanghe B, Birk DE, Pandey A, Chakravarti S,  (2011) &quot;Proteome profiling of wild type and lumican-deficient mouse corneas.&quot; <i>J Proteomics</i> <b>74</b>(10):1895&ndash;905; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21616181 21616181]; doi: [https://dx.doi.org/10.1016/j.jprot.2011.04.032 10.1016/j.jprot.2011.04.032]; GPMDB: [http://gpmdb.org/data/keyword/21616181 96].
#Shao H, Chaerkady R, Chen S, Pinto SM, Sharma R, Delanghe B, Birk DE, Pandey A, Chakravarti S,  (2011) &quot;Proteome profiling of wild type and lumican-deficient mouse corneas.&quot; <i>J Proteomics</i> <b>74</b>(10):1895&ndash;905; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21616181 21616181]; doi: [https://dx.doi.org/10.1016/j.jprot.2011.04.032 10.1016/j.jprot.2011.04.032]; GPMDB: [http://gpmdb.org/data/keyword/21616181 96].
#Helsens K, Van Damme P, Degroeve S, Martens L, Arnesen T, Vandekerckhove J, Gevaert K,  (2011) &quot;Bioinformatics analysis of a Saccharomyces cerevisiae N-terminal proteome provides evidence of alternative translation initiation and post-translational N-terminal acetylation.&quot; <i>J Proteome Res</i> <b>10</b>(8):3578&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21619078 21619078]; doi: [https://dx.doi.org/10.1021/pr2002325 10.1021/pr2002325]; GPMDB: [http://gpmdb.org/data/keyword/21619078 1].
#Helsens K, Van Damme P, Degroeve S, Martens L, Arnesen T, Vandekerckhove J, Gevaert K,  (2011) &quot;Bioinformatics analysis of a Saccharomyces cerevisiae N-terminal proteome provides evidence of alternative translation initiation and post-translational N-terminal acetylation.&quot; <i>J Proteome Res</i> <b>10</b>(8):3578&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21619078 21619078]; doi: [https://dx.doi.org/10.1021/pr2002325 10.1021/pr2002325]; GPMDB: [http://gpmdb.org/data/keyword/21619078 1].
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#Olsson N, Wingren C, Mattsson M, James P, O'Connell D, Nilsson F, Cahill DJ, Borrebaeck CA,  (2011) &quot;Proteomic analysis and discovery using affinity proteomics and mass spectrometry.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(10):M110.003962; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21673276 21673276]; doi: [https://dx.doi.org/10.1074/mcp.M110.003962 10.1074/mcp.M110.003962]; GPMDB: [http://gpmdb.org/data/keyword/21673276 109].
#Olsson N, Wingren C, Mattsson M, James P, O'Connell D, Nilsson F, Cahill DJ, Borrebaeck CA,  (2011) &quot;Proteomic analysis and discovery using affinity proteomics and mass spectrometry.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(10):M110.003962; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21673276 21673276]; doi: [https://dx.doi.org/10.1074/mcp.M110.003962 10.1074/mcp.M110.003962]; GPMDB: [http://gpmdb.org/data/keyword/21673276 109].
#Addona TA, Shi X, Keshishian H, Mani DR, Burgess M, Gillette MA, Clauser KR, Shen D, Lewis GD, Farrell LA, Fifer MA, Sabatine MS, Gerszten RE, Carr SA,  (2011) &quot;A pipeline that integrates the discovery and verification of plasma protein biomarkers reveals candidate markers for cardiovascular disease.&quot; <i>Nat Biotechnol</i> <b>29</b>(7):635&ndash;43; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21685905 21685905]; doi: [https://dx.doi.org/10.1038/nbt.1899 10.1038/nbt.1899]; GPMDB: [http://gpmdb.org/data/keyword/21685905 269].
#Addona TA, Shi X, Keshishian H, Mani DR, Burgess M, Gillette MA, Clauser KR, Shen D, Lewis GD, Farrell LA, Fifer MA, Sabatine MS, Gerszten RE, Carr SA,  (2011) &quot;A pipeline that integrates the discovery and verification of plasma protein biomarkers reveals candidate markers for cardiovascular disease.&quot; <i>Nat Biotechnol</i> <b>29</b>(7):635&ndash;43; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21685905 21685905]; doi: [https://dx.doi.org/10.1038/nbt.1899 10.1038/nbt.1899]; GPMDB: [http://gpmdb.org/data/keyword/21685905 269].
-
#Gfeller A, Baerenfaller K, Loscos J, Chételat A, Baginsky S, Farmer EE,  (2011) &quot;Jasmonate controls polypeptide patterning in undamaged tissue in wounded Arabidopsis leaves.&quot; <i>Plant Physiol</i> <b>156</b>(4):1797&ndash;807; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21693672 21693672]; doi: [https://dx.doi.org/10.1104/pp.111.181008 10.1104/pp.111.181008]; GPMDB: [http://gpmdb.org/data/keyword/21693672 8].
+
#Gfeller A, Baerenfaller K, Loscos J, Chételat A, Baginsky S, Farmer EE,  (2011) &quot;Jasmonate controls polypeptide patterning in undamaged tissue in wounded Arabidopsis leaves.&quot; <i>Plant Physiol</i> <b>156</b>(4):1797&ndash;807; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21693672 21693672]; doi: [https://dx.doi.org/10.1104/pp.111.181008 10.1104/pp.111.181008]; GPMDB: [http://gpmdb.org/data/keyword/21693672 8].
#Karn RC, Laukaitis CM,  (2011) &quot;Positive selection shaped the convergent evolution of independently expanded kallikrein subfamilies expressed in mouse and rat saliva proteomes.&quot; <i>PLoS One</i> <b>6</b>(6):e20979; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21695125 21695125]; doi: [https://dx.doi.org/10.1371/journal.pone.0020979 10.1371/journal.pone.0020979]; GPMDB: [http://gpmdb.org/data/keyword/21695125 102].
#Karn RC, Laukaitis CM,  (2011) &quot;Positive selection shaped the convergent evolution of independently expanded kallikrein subfamilies expressed in mouse and rat saliva proteomes.&quot; <i>PLoS One</i> <b>6</b>(6):e20979; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21695125 21695125]; doi: [https://dx.doi.org/10.1371/journal.pone.0020979 10.1371/journal.pone.0020979]; GPMDB: [http://gpmdb.org/data/keyword/21695125 102].
#de Oliveira JM, van Passel MW, Schaap PJ, de Graaff LH,  (2011) &quot;Proteomic analysis of the secretory response of Aspergillus niger to D-maltose and D-xylose.&quot; <i>PLoS One</i> <b>6</b>(6):e20865; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21698107 21698107]; doi: [https://dx.doi.org/10.1371/journal.pone.0020865 10.1371/journal.pone.0020865]; GPMDB: [http://gpmdb.org/data/keyword/21698107 2].
#de Oliveira JM, van Passel MW, Schaap PJ, de Graaff LH,  (2011) &quot;Proteomic analysis of the secretory response of Aspergillus niger to D-maltose and D-xylose.&quot; <i>PLoS One</i> <b>6</b>(6):e20865; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21698107 21698107]; doi: [https://dx.doi.org/10.1371/journal.pone.0020865 10.1371/journal.pone.0020865]; GPMDB: [http://gpmdb.org/data/keyword/21698107 2].
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#Freschi L, Courcelles M, Thibault P, Michnick SW, Landry CR,  (2011) &quot;Phosphorylation network rewiring by gene duplication.&quot; <i>Mol Syst Biol</i> <b>7</b>:504; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21734643 21734643]; doi: [https://dx.doi.org/10.1038/msb.2011.43 10.1038/msb.2011.43]; GPMDB: [http://gpmdb.org/data/keyword/21734643 2].
#Freschi L, Courcelles M, Thibault P, Michnick SW, Landry CR,  (2011) &quot;Phosphorylation network rewiring by gene duplication.&quot; <i>Mol Syst Biol</i> <b>7</b>:504; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21734643 21734643]; doi: [https://dx.doi.org/10.1038/msb.2011.43 10.1038/msb.2011.43]; GPMDB: [http://gpmdb.org/data/keyword/21734643 2].
#Bright LA, Mujahid N, Nanduri B, McCarthy FM, Costa LR, Burgess SC, Swiderski CE,  (2011) &quot;Functional modelling of an equine bronchoalveolar lavage fluid proteome provides experimental confirmation and functional annotation of equine genome sequences.&quot; <i>Anim Genet</i> <b>42</b>(4):395&ndash;405; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21749422 21749422]; doi: [https://dx.doi.org/10.1111/j.1365-2052.2010.02158.x 10.1111/j.1365-2052.2010.02158.x]; GPMDB: [http://gpmdb.org/data/keyword/21749422 6].
#Bright LA, Mujahid N, Nanduri B, McCarthy FM, Costa LR, Burgess SC, Swiderski CE,  (2011) &quot;Functional modelling of an equine bronchoalveolar lavage fluid proteome provides experimental confirmation and functional annotation of equine genome sequences.&quot; <i>Anim Genet</i> <b>42</b>(4):395&ndash;405; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21749422 21749422]; doi: [https://dx.doi.org/10.1111/j.1365-2052.2010.02158.x 10.1111/j.1365-2052.2010.02158.x]; GPMDB: [http://gpmdb.org/data/keyword/21749422 6].
-
#Chi BK, Gronau K, Mäder U, Hessling B, Becher D, Antelmann H,  (2011) &quot;S-bacillithiolation protects against hypochlorite stress in Bacillus subtilis as revealed by transcriptomics and redox proteomics.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(11):M111.009506; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21749987 21749987]; doi: [https://dx.doi.org/10.1074/mcp.M111.009506 10.1074/mcp.M111.009506]; GPMDB: [http://gpmdb.org/data/keyword/21749987 144].
+
#Chi BK, Gronau K, Mäder U, Hessling B, Becher D, Antelmann H,  (2011) &quot;S-bacillithiolation protects against hypochlorite stress in Bacillus subtilis as revealed by transcriptomics and redox proteomics.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(11):M111.009506; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21749987 21749987]; doi: [https://dx.doi.org/10.1074/mcp.M111.009506 10.1074/mcp.M111.009506]; GPMDB: [http://gpmdb.org/data/keyword/21749987 144].
#Choi DS, Kim DK, Choi SJ, Lee J, Choi JP, Rho S, Park SH, Kim YK, Hwang D, Gho YS,  (2011) &quot;Proteomic analysis of outer membrane vesicles derived from Pseudomonas aeruginosa.&quot; <i>Proteomics</i> <b>11</b>(16):3424&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21751344 21751344]; doi: [https://dx.doi.org/10.1002/pmic.201000212 10.1002/pmic.201000212]; GPMDB: [http://gpmdb.org/data/keyword/21751344 4].
#Choi DS, Kim DK, Choi SJ, Lee J, Choi JP, Rho S, Park SH, Kim YK, Hwang D, Gho YS,  (2011) &quot;Proteomic analysis of outer membrane vesicles derived from Pseudomonas aeruginosa.&quot; <i>Proteomics</i> <b>11</b>(16):3424&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21751344 21751344]; doi: [https://dx.doi.org/10.1002/pmic.201000212 10.1002/pmic.201000212]; GPMDB: [http://gpmdb.org/data/keyword/21751344 4].
#Vermachova M, Purkrtova Z, Santrucek J, Jolivet P, Chardot T, Kodicek M,  (2011) &quot;New protein isoforms identified within Arabidopsis thaliana seed oil bodies combining chymotrypsin/trypsin digestion and peptide fragmentation analysis.&quot; <i>Proteomics</i> <b>11</b>(16):3430&ndash;4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21751352 21751352]; doi: [https://dx.doi.org/10.1002/pmic.201000603 10.1002/pmic.201000603]; GPMDB: [http://gpmdb.org/data/keyword/21751352 19].
#Vermachova M, Purkrtova Z, Santrucek J, Jolivet P, Chardot T, Kodicek M,  (2011) &quot;New protein isoforms identified within Arabidopsis thaliana seed oil bodies combining chymotrypsin/trypsin digestion and peptide fragmentation analysis.&quot; <i>Proteomics</i> <b>11</b>(16):3430&ndash;4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21751352 21751352]; doi: [https://dx.doi.org/10.1002/pmic.201000603 10.1002/pmic.201000603]; GPMDB: [http://gpmdb.org/data/keyword/21751352 19].
-
#Capriotti AL, Caracciolo G, Caruso G, Foglia P, Pozzi D, Samperi R, Laganà A,  (2011) &quot;DNA affects the composition of lipoplex protein corona: a proteomics approach.&quot; <i>Proteomics</i> <b>11</b>(16):3349&ndash;58; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21751361 21751361]; doi: [https://dx.doi.org/10.1002/pmic.201000803 10.1002/pmic.201000803]; GPMDB: [http://gpmdb.org/data/keyword/21751361 2].
+
#Capriotti AL, Caracciolo G, Caruso G, Foglia P, Pozzi D, Samperi R, Laganà A,  (2011) &quot;DNA affects the composition of lipoplex protein corona: a proteomics approach.&quot; <i>Proteomics</i> <b>11</b>(16):3349&ndash;58; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21751361 21751361]; doi: [https://dx.doi.org/10.1002/pmic.201000803 10.1002/pmic.201000803]; GPMDB: [http://gpmdb.org/data/keyword/21751361 2].
#Raj L, Ide T, Gurkar AU, Foley M, Schenone M, Li X, Tolliday NJ, Golub TR, Carr SA, Shamji AF, Stern AM, Mandinova A, Schreiber SL, Lee SW,  (2011) &quot;Selective killing of cancer cells by a small molecule targeting the stress response to ROS.&quot; <i>Nature</i> <b>475</b>(7355):231&ndash;4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21753854 21753854]; doi: [https://dx.doi.org/10.1038/nature10167 10.1038/nature10167]; GPMDB: [http://gpmdb.org/data/keyword/21753854 81].
#Raj L, Ide T, Gurkar AU, Foley M, Schenone M, Li X, Tolliday NJ, Golub TR, Carr SA, Shamji AF, Stern AM, Mandinova A, Schreiber SL, Lee SW,  (2011) &quot;Selective killing of cancer cells by a small molecule targeting the stress response to ROS.&quot; <i>Nature</i> <b>475</b>(7355):231&ndash;4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21753854 21753854]; doi: [https://dx.doi.org/10.1038/nature10167 10.1038/nature10167]; GPMDB: [http://gpmdb.org/data/keyword/21753854 81].
#Reiland S, Finazzi G, Endler A, Willig A, Baerenfaller K, Grossmann J, Gerrits B, Rutishauser D, Gruissem W, Rochaix JD, Baginsky S,  (2011) &quot;Comparative phosphoproteome profiling reveals a function of the STN8 kinase in fine-tuning of cyclic electron flow (CEF).&quot; <i>Proc Natl Acad Sci U S A</i> <b>108</b>(31):12955&ndash;60; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21768351 21768351]; doi: [https://dx.doi.org/10.1073/pnas.1104734108 10.1073/pnas.1104734108]; GPMDB: [http://gpmdb.org/data/keyword/21768351 8].
#Reiland S, Finazzi G, Endler A, Willig A, Baerenfaller K, Grossmann J, Gerrits B, Rutishauser D, Gruissem W, Rochaix JD, Baginsky S,  (2011) &quot;Comparative phosphoproteome profiling reveals a function of the STN8 kinase in fine-tuning of cyclic electron flow (CEF).&quot; <i>Proc Natl Acad Sci U S A</i> <b>108</b>(31):12955&ndash;60; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21768351 21768351]; doi: [https://dx.doi.org/10.1073/pnas.1104734108 10.1073/pnas.1104734108]; GPMDB: [http://gpmdb.org/data/keyword/21768351 8].
-
#Schmidt A, Beck M, Malmström J, Lam H, Claassen M, Campbell D, Aebersold R,  (2011) &quot;Absolute quantification of microbial proteomes at different states by directed mass spectrometry.&quot; <i>Mol Syst Biol</i> <b>7</b>:510; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21772258 21772258]; doi: [https://dx.doi.org/10.1038/msb.2011.37 10.1038/msb.2011.37]; GPMDB: [http://gpmdb.org/data/keyword/21772258 93].
+
#Schmidt A, Beck M, Malmström J, Lam H, Claassen M, Campbell D, Aebersold R,  (2011) &quot;Absolute quantification of microbial proteomes at different states by directed mass spectrometry.&quot; <i>Mol Syst Biol</i> <b>7</b>:510; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21772258 21772258]; doi: [https://dx.doi.org/10.1038/msb.2011.37 10.1038/msb.2011.37]; GPMDB: [http://gpmdb.org/data/keyword/21772258 93].
-
#Maier T, Schmidt A, Güell M, Kühner S, Gavin AC, Aebersold R, Serrano L,  (2011) &quot;Quantification of mRNA and protein and integration with protein turnover in a bacterium.&quot; <i>Mol Syst Biol</i> <b>7</b>:511; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21772259 21772259]; doi: [https://dx.doi.org/10.1038/msb.2011.38 10.1038/msb.2011.38]; GPMDB: [http://gpmdb.org/data/keyword/21772259 42].
+
#Maier T, Schmidt A, Güell M, Kühner S, Gavin AC, Aebersold R, Serrano L,  (2011) &quot;Quantification of mRNA and protein and integration with protein turnover in a bacterium.&quot; <i>Mol Syst Biol</i> <b>7</b>:511; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21772259 21772259]; doi: [https://dx.doi.org/10.1038/msb.2011.38 10.1038/msb.2011.38]; GPMDB: [http://gpmdb.org/data/keyword/21772259 42].
#Sundaresan NR, Pillai VB, Wolfgeher D, Samant S, Vasudevan P, Parekh V, Raghuraman H, Cunningham JM, Gupta M, Gupta MP,  (2011) &quot;The deacetylase SIRT1 promotes membrane localization and activation of Akt and PDK1 during tumorigenesis and cardiac hypertrophy.&quot; <i>Sci Signal</i> <b>4</b>(182):ra46; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21775285 21775285]; doi: [https://dx.doi.org/10.1126/scisignal.2001465 10.1126/scisignal.2001465]; GPMDB: [http://gpmdb.org/data/keyword/21775285 2].
#Sundaresan NR, Pillai VB, Wolfgeher D, Samant S, Vasudevan P, Parekh V, Raghuraman H, Cunningham JM, Gupta M, Gupta MP,  (2011) &quot;The deacetylase SIRT1 promotes membrane localization and activation of Akt and PDK1 during tumorigenesis and cardiac hypertrophy.&quot; <i>Sci Signal</i> <b>4</b>(182):ra46; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21775285 21775285]; doi: [https://dx.doi.org/10.1126/scisignal.2001465 10.1126/scisignal.2001465]; GPMDB: [http://gpmdb.org/data/keyword/21775285 2].
#Ficarro SB, Zhang Y, Carrasco-Alfonso MJ, Garg B, Adelmant G, Webber JT, Luckey CJ, Marto JA,  (2011) &quot;Online nanoflow multidimensional fractionation for high efficiency phosphopeptide analysis.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(11):O111.011064; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21788404 21788404]; doi: [https://dx.doi.org/10.1074/mcp.O111.011064 10.1074/mcp.O111.011064]; GPMDB: [http://gpmdb.org/data/keyword/21788404 437].
#Ficarro SB, Zhang Y, Carrasco-Alfonso MJ, Garg B, Adelmant G, Webber JT, Luckey CJ, Marto JA,  (2011) &quot;Online nanoflow multidimensional fractionation for high efficiency phosphopeptide analysis.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(11):O111.011064; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21788404 21788404]; doi: [https://dx.doi.org/10.1074/mcp.O111.011064 10.1074/mcp.O111.011064]; GPMDB: [http://gpmdb.org/data/keyword/21788404 437].
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#Blasius M, Forment JV, Thakkar N, Wagner SA, Choudhary C, Jackson SP,  (2011) &quot;A phospho-proteomic screen identifies substrates of the checkpoint kinase Chk1.&quot; <i>Genome Biol</i> <b>12</b>(8):R78; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21851590 21851590]; doi: [https://dx.doi.org/10.1186/gb-2011-12-8-r78 10.1186/gb-2011-12-8-r78]; GPMDB: [http://gpmdb.org/data/keyword/21851590 2].
#Blasius M, Forment JV, Thakkar N, Wagner SA, Choudhary C, Jackson SP,  (2011) &quot;A phospho-proteomic screen identifies substrates of the checkpoint kinase Chk1.&quot; <i>Genome Biol</i> <b>12</b>(8):R78; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21851590 21851590]; doi: [https://dx.doi.org/10.1186/gb-2011-12-8-r78 10.1186/gb-2011-12-8-r78]; GPMDB: [http://gpmdb.org/data/keyword/21851590 2].
#Grosstessner-Hain K, Hegemann B, Novatchkova M, Rameseder J, Joughin BA, Hudecz O, Roitinger E, Pichler P, Kraut N, Yaffe MB, Peters JM, Mechtler K,  (2011) &quot;Quantitative phospho-proteomics to investigate the polo-like kinase 1-dependent phospho-proteome.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(11):M111.008540; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21857030 21857030]; doi: [https://dx.doi.org/10.1074/mcp.M111.008540 10.1074/mcp.M111.008540]; GPMDB: [http://gpmdb.org/data/keyword/21857030 27].
#Grosstessner-Hain K, Hegemann B, Novatchkova M, Rameseder J, Joughin BA, Hudecz O, Roitinger E, Pichler P, Kraut N, Yaffe MB, Peters JM, Mechtler K,  (2011) &quot;Quantitative phospho-proteomics to investigate the polo-like kinase 1-dependent phospho-proteome.&quot; <i>Mol Cell Proteomics</i> <b>10</b>(11):M111.008540; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21857030 21857030]; doi: [https://dx.doi.org/10.1074/mcp.M111.008540 10.1074/mcp.M111.008540]; GPMDB: [http://gpmdb.org/data/keyword/21857030 27].
-
#Galli M, Muñoz J, Portegijs V, Boxem M, Grill SW, Heck AJ, van den Heuvel S,  (2011) &quot;aPKC phosphorylates NuMA-related LIN-5 to position the mitotic spindle during asymmetric division.&quot; <i>Nat Cell Biol</i> <b>13</b>(9):1132&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21857670 21857670]; doi: [https://dx.doi.org/10.1038/ncb2315 10.1038/ncb2315]; GPMDB: [http://gpmdb.org/data/keyword/21857670 57].
+
#Galli M, Muñoz J, Portegijs V, Boxem M, Grill SW, Heck AJ, van den Heuvel S,  (2011) &quot;aPKC phosphorylates NuMA-related LIN-5 to position the mitotic spindle during asymmetric division.&quot; <i>Nat Cell Biol</i> <b>13</b>(9):1132&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21857670 21857670]; doi: [https://dx.doi.org/10.1038/ncb2315 10.1038/ncb2315]; GPMDB: [http://gpmdb.org/data/keyword/21857670 57].
#James R, Searcy JL, Le Bihan T, Martin SF, Gliddon CM, Povey J, Deighton RF, Kerr LE, McCulloch J, Horsburgh K,  (2012) &quot;Proteomic analysis of mitochondria in APOE transgenic mice and in response to an ischemic challenge.&quot; <i>J Cereb Blood Flow Metab</i> <b>32</b>(1):164&ndash;76; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21878944 21878944]; doi: [https://dx.doi.org/10.1038/jcbfm.2011.120 10.1038/jcbfm.2011.120]; GPMDB: [http://gpmdb.org/data/keyword/21878944 29].
#James R, Searcy JL, Le Bihan T, Martin SF, Gliddon CM, Povey J, Deighton RF, Kerr LE, McCulloch J, Horsburgh K,  (2012) &quot;Proteomic analysis of mitochondria in APOE transgenic mice and in response to an ischemic challenge.&quot; <i>J Cereb Blood Flow Metab</i> <b>32</b>(1):164&ndash;76; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21878944 21878944]; doi: [https://dx.doi.org/10.1038/jcbfm.2011.120 10.1038/jcbfm.2011.120]; GPMDB: [http://gpmdb.org/data/keyword/21878944 29].
#Peng L, Kapp EA, McLauchlan D, Jordan TW,  (2011) &quot;Characterization of the Asia Oceania Human Proteome Organisation Membrane Proteomics Initiative Standard using SDS-PAGE shotgun proteomics.&quot; <i>Proteomics</i> <b>11</b>(22):4376&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21887821 21887821]; doi: [https://dx.doi.org/10.1002/pmic.201100169 10.1002/pmic.201100169]; GPMDB: [http://gpmdb.org/data/keyword/21887821 6].
#Peng L, Kapp EA, McLauchlan D, Jordan TW,  (2011) &quot;Characterization of the Asia Oceania Human Proteome Organisation Membrane Proteomics Initiative Standard using SDS-PAGE shotgun proteomics.&quot; <i>Proteomics</i> <b>11</b>(22):4376&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21887821 21887821]; doi: [https://dx.doi.org/10.1002/pmic.201100169 10.1002/pmic.201100169]; GPMDB: [http://gpmdb.org/data/keyword/21887821 6].
#Fischer JJ, Michaelis S, Schrey AK, Diehl A, Graebner OY, Ungewiss J, Horzowski S, Glinski M, Kroll F, Dreger M, Koester H,  (2011) &quot;SAHA Capture Compound--a novel tool for the profiling of histone deacetylases and the identification of additional vorinostat binders.&quot; <i>Proteomics</i> <b>11</b>(20):4096&ndash;104; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21898820 21898820]; doi: [https://dx.doi.org/10.1002/pmic.201000717 10.1002/pmic.201000717]; GPMDB: [http://gpmdb.org/data/keyword/21898820 18].
#Fischer JJ, Michaelis S, Schrey AK, Diehl A, Graebner OY, Ungewiss J, Horzowski S, Glinski M, Kroll F, Dreger M, Koester H,  (2011) &quot;SAHA Capture Compound--a novel tool for the profiling of histone deacetylases and the identification of additional vorinostat binders.&quot; <i>Proteomics</i> <b>11</b>(20):4096&ndash;104; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21898820 21898820]; doi: [https://dx.doi.org/10.1002/pmic.201000717 10.1002/pmic.201000717]; GPMDB: [http://gpmdb.org/data/keyword/21898820 18].
-
#Østergaard L, Honoré B, Thorsen LB, Baandrup J, Eskildsen-Helmond Y, Laursen BE, Vorum H, Mulvany MJ, Simonsen U,  (2011) &quot;Pulmonary pressure reduction attenuates expression of proteins identified by lung proteomic profiling in pulmonary hypertensive rats.&quot; <i>Proteomics</i> <b>11</b>(23):4492&ndash;502; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21905223 21905223]; doi: [https://dx.doi.org/10.1002/pmic.201100171 10.1002/pmic.201100171]; GPMDB: [http://gpmdb.org/data/keyword/21905223 1].
+
#Østergaard L, Honoré B, Thorsen LB, Baandrup J, Eskildsen-Helmond Y, Laursen BE, Vorum H, Mulvany MJ, Simonsen U,  (2011) &quot;Pulmonary pressure reduction attenuates expression of proteins identified by lung proteomic profiling in pulmonary hypertensive rats.&quot; <i>Proteomics</i> <b>11</b>(23):4492&ndash;502; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21905223 21905223]; doi: [https://dx.doi.org/10.1002/pmic.201100171 10.1002/pmic.201100171]; GPMDB: [http://gpmdb.org/data/keyword/21905223 1].
#Kim W, Bennett EJ, Huttlin EL, Guo A, Li J, Possemato A, Sowa ME, Rad R, Rush J, Comb MJ, Harper JW, Gygi SP,  (2011) &quot;Systematic and quantitative assessment of the ubiquitin-modified proteome.&quot; <i>Mol Cell</i> <b>44</b>(2):325&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21906983 21906983]; doi: [https://dx.doi.org/10.1016/j.molcel.2011.08.025 10.1016/j.molcel.2011.08.025]; GPMDB: [http://gpmdb.org/data/keyword/21906983 90].
#Kim W, Bennett EJ, Huttlin EL, Guo A, Li J, Possemato A, Sowa ME, Rad R, Rush J, Comb MJ, Harper JW, Gygi SP,  (2011) &quot;Systematic and quantitative assessment of the ubiquitin-modified proteome.&quot; <i>Mol Cell</i> <b>44</b>(2):325&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21906983 21906983]; doi: [https://dx.doi.org/10.1016/j.molcel.2011.08.025 10.1016/j.molcel.2011.08.025]; GPMDB: [http://gpmdb.org/data/keyword/21906983 90].
-
#Nguyen HM, Baudet M, Cuiné S, Adriano JM, Barthe D, Billon E, Bruley C, Beisson F, Peltier G, Ferro M, Li-Beisson Y,  (2011) &quot;Proteomic profiling of oil bodies isolated from the unicellular green microalga Chlamydomonas reinhardtii: with focus on proteins involved in lipid metabolism.&quot; <i>Proteomics</i> <b>11</b>(21):4266&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21928291 21928291]; doi: [https://dx.doi.org/10.1002/pmic.201100114 10.1002/pmic.201100114]; GPMDB: [http://gpmdb.org/data/keyword/21928291 1].
+
#Nguyen HM, Baudet M, Cuiné S, Adriano JM, Barthe D, Billon E, Bruley C, Beisson F, Peltier G, Ferro M, Li-Beisson Y,  (2011) &quot;Proteomic profiling of oil bodies isolated from the unicellular green microalga Chlamydomonas reinhardtii: with focus on proteins involved in lipid metabolism.&quot; <i>Proteomics</i> <b>11</b>(21):4266&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21928291 21928291]; doi: [https://dx.doi.org/10.1002/pmic.201100114 10.1002/pmic.201100114]; GPMDB: [http://gpmdb.org/data/keyword/21928291 1].
#Rogers LD, Brown NF, Fang Y, Pelech S, Foster LJ,  (2011) &quot;Phosphoproteomic analysis of Salmonella-infected cells identifies key kinase regulators and SopB-dependent host phosphorylation events.&quot; <i>Sci Signal</i> <b>4</b>(191):rs9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21934108 21934108]; doi: [https://dx.doi.org/10.1126/scisignal.2001668 10.1126/scisignal.2001668]; GPMDB: [http://gpmdb.org/data/keyword/21934108 9].
#Rogers LD, Brown NF, Fang Y, Pelech S, Foster LJ,  (2011) &quot;Phosphoproteomic analysis of Salmonella-infected cells identifies key kinase regulators and SopB-dependent host phosphorylation events.&quot; <i>Sci Signal</i> <b>4</b>(191):rs9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21934108 21934108]; doi: [https://dx.doi.org/10.1126/scisignal.2001668 10.1126/scisignal.2001668]; GPMDB: [http://gpmdb.org/data/keyword/21934108 9].
-
#Boisvert FM, Ahmad Y, Gierliński M, Charrière F, Lamont D, Scott M, Barton G, Lamond AI,  (2012) &quot;A quantitative spatial proteomics analysis of proteome turnover in human cells.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(3):M111.011429; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21937730 21937730]; doi: [https://dx.doi.org/10.1074/mcp.M111.011429 10.1074/mcp.M111.011429]; GPMDB: [http://gpmdb.org/data/keyword/21937730 526].
+
#Boisvert FM, Ahmad Y, GierliÅ„ski M, Charrière F, Lamont D, Scott M, Barton G, Lamond AI,  (2012) &quot;A quantitative spatial proteomics analysis of proteome turnover in human cells.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(3):M111.011429; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21937730 21937730]; doi: [https://dx.doi.org/10.1074/mcp.M111.011429 10.1074/mcp.M111.011429]; GPMDB: [http://gpmdb.org/data/keyword/21937730 526].
-
#Nishtala K, Phong TQ, Steil L, Sauter M, Salazar MG, Kandolf R, Kroemer HK, Felix SB, Völker U, Klingel K, Hammer E,  (2011) &quot;Virus-induced dilated cardiomyopathy is characterized by increased levels of fibrotic extracellular matrix proteins and reduced amounts of energy-producing enzymes.&quot; <i>Proteomics</i> <b>11</b>(22):4310&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21954127 21954127]; doi: [https://dx.doi.org/10.1002/pmic.201100229 10.1002/pmic.201100229]; GPMDB: [http://gpmdb.org/data/keyword/21954127 91].
+
#Nishtala K, Phong TQ, Steil L, Sauter M, Salazar MG, Kandolf R, Kroemer HK, Felix SB, Völker U, Klingel K, Hammer E,  (2011) &quot;Virus-induced dilated cardiomyopathy is characterized by increased levels of fibrotic extracellular matrix proteins and reduced amounts of energy-producing enzymes.&quot; <i>Proteomics</i> <b>11</b>(22):4310&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21954127 21954127]; doi: [https://dx.doi.org/10.1002/pmic.201100229 10.1002/pmic.201100229]; GPMDB: [http://gpmdb.org/data/keyword/21954127 91].
#Zeiler M, Straube WL, Lundberg E, Uhlen M, Mann M,  (2012) &quot;A Protein Epitope Signature Tag (PrEST) library allows SILAC-based absolute quantification and multiplexed determination of protein copy numbers in cell lines.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(3):O111.009613; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21964433 21964433]; doi: [https://dx.doi.org/10.1074/mcp.O111.009613 10.1074/mcp.O111.009613]; GPMDB: [http://gpmdb.org/data/keyword/21964433 138].
#Zeiler M, Straube WL, Lundberg E, Uhlen M, Mann M,  (2012) &quot;A Protein Epitope Signature Tag (PrEST) library allows SILAC-based absolute quantification and multiplexed determination of protein copy numbers in cell lines.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(3):O111.009613; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/21964433 21964433]; doi: [https://dx.doi.org/10.1074/mcp.O111.009613 10.1074/mcp.O111.009613]; GPMDB: [http://gpmdb.org/data/keyword/21964433 138].
# () &quot;&quot; <i></i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/ ]; GPMDB: [http://gpmdb.org/data/keyword/21969610 52].
# () &quot;&quot; <i></i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/ ]; GPMDB: [http://gpmdb.org/data/keyword/21969610 52].
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#Capuano F, Bond NJ, Gatto L, Beaudoin F, Napier JA, Benvenuto E, Lilley KS, Baschieri S,  (2011) &quot;LC-MS/MS methods for absolute quantification and identification of proteins associated with chimeric plant oil bodies.&quot; <i>Anal Chem</i> <b>83</b>(24):9267&ndash;72; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22017570 22017570]; doi: [https://dx.doi.org/10.1021/ac201733m 10.1021/ac201733m]; GPMDB: [http://gpmdb.org/data/keyword/22017570 3].
#Capuano F, Bond NJ, Gatto L, Beaudoin F, Napier JA, Benvenuto E, Lilley KS, Baschieri S,  (2011) &quot;LC-MS/MS methods for absolute quantification and identification of proteins associated with chimeric plant oil bodies.&quot; <i>Anal Chem</i> <b>83</b>(24):9267&ndash;72; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22017570 22017570]; doi: [https://dx.doi.org/10.1021/ac201733m 10.1021/ac201733m]; GPMDB: [http://gpmdb.org/data/keyword/22017570 3].
#Nagaraj N, Kulak NA, Cox J, Neuhauser N, Mayr K, Hoerning O, Vorm O, Mann M,  (2012) &quot;System-wide perturbation analysis with nearly complete coverage of the yeast proteome by single-shot ultra HPLC runs on a bench top Orbitrap.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(3):M111.013722; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22021278 22021278]; doi: [https://dx.doi.org/10.1074/mcp.M111.013722 10.1074/mcp.M111.013722]; GPMDB: [http://gpmdb.org/data/keyword/22021278 13].
#Nagaraj N, Kulak NA, Cox J, Neuhauser N, Mayr K, Hoerning O, Vorm O, Mann M,  (2012) &quot;System-wide perturbation analysis with nearly complete coverage of the yeast proteome by single-shot ultra HPLC runs on a bench top Orbitrap.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(3):M111.013722; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22021278 22021278]; doi: [https://dx.doi.org/10.1074/mcp.M111.013722 10.1074/mcp.M111.013722]; GPMDB: [http://gpmdb.org/data/keyword/22021278 13].
-
#Bedon F, Villar E, Vincent D, Dupuy JW, Lomenech AM, Mabialangoma A, Chaumeil P, Barré A, Plomion C, Gion JM,  (2012) &quot;Proteomic plasticity of two Eucalyptus genotypes under contrasted water regimes in the field.&quot; <i>Plant Cell Environ</i> <b>35</b>(4):790&ndash;805; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22026815 22026815]; doi: [https://dx.doi.org/10.1111/j.1365-3040.2011.02452.x 10.1111/j.1365-3040.2011.02452.x]; GPMDB: [http://gpmdb.org/data/keyword/22026815 145].
+
#Bedon F, Villar E, Vincent D, Dupuy JW, Lomenech AM, Mabialangoma A, Chaumeil P, Barré A, Plomion C, Gion JM,  (2012) &quot;Proteomic plasticity of two Eucalyptus genotypes under contrasted water regimes in the field.&quot; <i>Plant Cell Environ</i> <b>35</b>(4):790&ndash;805; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22026815 22026815]; doi: [https://dx.doi.org/10.1111/j.1365-3040.2011.02452.x 10.1111/j.1365-3040.2011.02452.x]; GPMDB: [http://gpmdb.org/data/keyword/22026815 145].
#Inder KL, Zheng YZ, Davis MJ, Moon H, Loo D, Nguyen H, Clements JA, Parton RG, Foster LJ, Hill MM,  (2012) &quot;Expression of PTRF in PC-3 Cells modulates cholesterol dynamics and the actin cytoskeleton impacting secretion pathways.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(2):M111.012245; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22030351 22030351]; doi: [https://dx.doi.org/10.1074/mcp.M111.012245 10.1074/mcp.M111.012245]; GPMDB: [http://gpmdb.org/data/keyword/22030351 16].
#Inder KL, Zheng YZ, Davis MJ, Moon H, Loo D, Nguyen H, Clements JA, Parton RG, Foster LJ, Hill MM,  (2012) &quot;Expression of PTRF in PC-3 Cells modulates cholesterol dynamics and the actin cytoskeleton impacting secretion pathways.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(2):M111.012245; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22030351 22030351]; doi: [https://dx.doi.org/10.1074/mcp.M111.012245 10.1074/mcp.M111.012245]; GPMDB: [http://gpmdb.org/data/keyword/22030351 16].
#Dunne JC, Li D, Kelly WJ, Leahy SC, Bond JJ, Attwood GT, Jordan TW,  (2012) &quot;Extracellular polysaccharide-degrading proteome of Butyrivibrio proteoclasticus.&quot; <i>J Proteome Res</i> <b>11</b>(1):131&ndash;42; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22060546 22060546]; doi: [https://dx.doi.org/10.1021/pr200864j 10.1021/pr200864j]; GPMDB: [http://gpmdb.org/data/keyword/22060546 2].
#Dunne JC, Li D, Kelly WJ, Leahy SC, Bond JJ, Attwood GT, Jordan TW,  (2012) &quot;Extracellular polysaccharide-degrading proteome of Butyrivibrio proteoclasticus.&quot; <i>J Proteome Res</i> <b>11</b>(1):131&ndash;42; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22060546 22060546]; doi: [https://dx.doi.org/10.1021/pr200864j 10.1021/pr200864j]; GPMDB: [http://gpmdb.org/data/keyword/22060546 2].
-
#Winck FV, Riaño-Pachón DM, Sommer F, Rupprecht J, Mueller-Roeber B,  (2012) &quot;The nuclear proteome of the green alga Chlamydomonas reinhardtii.&quot; <i>Proteomics</i> <b>12</b>(1):95&ndash;100; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22065562 22065562]; doi: [https://dx.doi.org/10.1002/pmic.201000782 10.1002/pmic.201000782]; GPMDB: [http://gpmdb.org/data/keyword/22065562 1].
+
#Winck FV, Riaño-Pachón DM, Sommer F, Rupprecht J, Mueller-Roeber B,  (2012) &quot;The nuclear proteome of the green alga Chlamydomonas reinhardtii.&quot; <i>Proteomics</i> <b>12</b>(1):95&ndash;100; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22065562 22065562]; doi: [https://dx.doi.org/10.1002/pmic.201000782 10.1002/pmic.201000782]; GPMDB: [http://gpmdb.org/data/keyword/22065562 1].
-
#Hegemann B, Hutchins JR, Hudecz O, Novatchkova M, Rameseder J, Sykora MM, Liu S, Mazanek M, Lénárt P, Hériché JK, Poser I, Kraut N, Hyman AA, Yaffe MB, Mechtler K, Peters JM,  (2011) &quot;Systematic phosphorylation analysis of human mitotic protein complexes.&quot; <i>Sci Signal</i> <b>4</b>(198):rs12; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22067460 22067460]; doi: [https://dx.doi.org/10.1126/scisignal.2001993 10.1126/scisignal.2001993]; GPMDB: [http://gpmdb.org/data/keyword/22067460 213].
+
#Hegemann B, Hutchins JR, Hudecz O, Novatchkova M, Rameseder J, Sykora MM, Liu S, Mazanek M, Lénárt P, Hériché JK, Poser I, Kraut N, Hyman AA, Yaffe MB, Mechtler K, Peters JM,  (2011) &quot;Systematic phosphorylation analysis of human mitotic protein complexes.&quot; <i>Sci Signal</i> <b>4</b>(198):rs12; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22067460 22067460]; doi: [https://dx.doi.org/10.1126/scisignal.2001993 10.1126/scisignal.2001993]; GPMDB: [http://gpmdb.org/data/keyword/22067460 213].
-
#Glatter T, Schittenhelm RB, Rinner O, Roguska K, Wepf A, Jünger MA, Köhler K, Jevtov I, Choi H, Schmidt A, Nesvizhskii AI, Stocker H, Hafen E, Aebersold R, Gstaiger M,  (2011) &quot;Modularity and hormone sensitivity of the Drosophila melanogaster insulin receptor/target of rapamycin interaction proteome.&quot; <i>Mol Syst Biol</i> <b>7</b>:547; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22068330 22068330]; doi: [https://dx.doi.org/10.1038/msb.2011.79 10.1038/msb.2011.79]; GPMDB: [http://gpmdb.org/data/keyword/22068330 138].
+
#Glatter T, Schittenhelm RB, Rinner O, Roguska K, Wepf A, Jünger MA, Köhler K, Jevtov I, Choi H, Schmidt A, Nesvizhskii AI, Stocker H, Hafen E, Aebersold R, Gstaiger M,  (2011) &quot;Modularity and hormone sensitivity of the Drosophila melanogaster insulin receptor/target of rapamycin interaction proteome.&quot; <i>Mol Syst Biol</i> <b>7</b>:547; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22068330 22068330]; doi: [https://dx.doi.org/10.1038/msb.2011.79 10.1038/msb.2011.79]; GPMDB: [http://gpmdb.org/data/keyword/22068330 138].
-
#Nagaraj N, Wisniewski JR, Geiger T, Cox J, Kircher M, Kelso J, Pääbo S, Mann M,  (2011) &quot;Deep proteome and transcriptome mapping of a human cancer cell line.&quot; <i>Mol Syst Biol</i> <b>7</b>:548; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22068331 22068331]; doi: [https://dx.doi.org/10.1038/msb.2011.81 10.1038/msb.2011.81]; GPMDB: [http://gpmdb.org/data/keyword/22068331 164].
+
#Nagaraj N, Wisniewski JR, Geiger T, Cox J, Kircher M, Kelso J, Pääbo S, Mann M,  (2011) &quot;Deep proteome and transcriptome mapping of a human cancer cell line.&quot; <i>Mol Syst Biol</i> <b>7</b>:548; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22068331 22068331]; doi: [https://dx.doi.org/10.1038/msb.2011.81 10.1038/msb.2011.81]; GPMDB: [http://gpmdb.org/data/keyword/22068331 164].
#Beck M, Schmidt A, Malmstroem J, Claassen M, Ori A, Szymborska A, Herzog F, Rinner O, Ellenberg J, Aebersold R,  (2011) &quot;The quantitative proteome of a human cell line.&quot; <i>Mol Syst Biol</i> <b>7</b>:549; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22068332 22068332]; doi: [https://dx.doi.org/10.1038/msb.2011.82 10.1038/msb.2011.82]; GPMDB: [http://gpmdb.org/data/keyword/22068332 60].
#Beck M, Schmidt A, Malmstroem J, Claassen M, Ori A, Szymborska A, Herzog F, Rinner O, Ellenberg J, Aebersold R,  (2011) &quot;The quantitative proteome of a human cell line.&quot; <i>Mol Syst Biol</i> <b>7</b>:549; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22068332 22068332]; doi: [https://dx.doi.org/10.1038/msb.2011.82 10.1038/msb.2011.82]; GPMDB: [http://gpmdb.org/data/keyword/22068332 60].
#Okamoto A, Yamada K,  (2011) &quot;Proteome driven re-evaluation and functional annotation of the Streptococcus pyogenes SF370 genome.&quot; <i>BMC Microbiol</i> <b>11</b>:249; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22070424 22070424]; doi: [https://dx.doi.org/10.1186/1471-2180-11-249 10.1186/1471-2180-11-249]; GPMDB: [http://gpmdb.org/data/keyword/22070424 2].
#Okamoto A, Yamada K,  (2011) &quot;Proteome driven re-evaluation and functional annotation of the Streptococcus pyogenes SF370 genome.&quot; <i>BMC Microbiol</i> <b>11</b>:249; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22070424 22070424]; doi: [https://dx.doi.org/10.1186/1471-2180-11-249 10.1186/1471-2180-11-249]; GPMDB: [http://gpmdb.org/data/keyword/22070424 2].
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#Barbhuiya MA, Sahasrabuddhe NA, Pinto SM, Muthusamy B, Singh TD, Nanjappa V, Keerthikumar S, Delanghe B, Harsha HC, Chaerkady R, Jalaj V, Gupta S, Shrivastav BR, Tiwari PK, Pandey A,  (2011) &quot;Comprehensive proteomic analysis of human bile.&quot; <i>Proteomics</i> <b>11</b>(23):4443&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22114102 22114102]; doi: [https://dx.doi.org/10.1002/pmic.201100197 10.1002/pmic.201100197]; GPMDB: [http://gpmdb.org/data/keyword/22114102 37].
#Barbhuiya MA, Sahasrabuddhe NA, Pinto SM, Muthusamy B, Singh TD, Nanjappa V, Keerthikumar S, Delanghe B, Harsha HC, Chaerkady R, Jalaj V, Gupta S, Shrivastav BR, Tiwari PK, Pandey A,  (2011) &quot;Comprehensive proteomic analysis of human bile.&quot; <i>Proteomics</i> <b>11</b>(23):4443&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22114102 22114102]; doi: [https://dx.doi.org/10.1002/pmic.201100197 10.1002/pmic.201100197]; GPMDB: [http://gpmdb.org/data/keyword/22114102 37].
#Wright B, Stanley RG, Kaiser WJ, Mills DJ, Gibbins JM,  (2011) &quot;Analysis of protein networks in resting and collagen receptor (GPVI)-stimulated platelet sub-proteomes.&quot; <i>Proteomics</i> <b>11</b>(23):4588&ndash;92; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22114104 22114104]; doi: [https://dx.doi.org/10.1002/pmic.201100410 10.1002/pmic.201100410]; GPMDB: [http://gpmdb.org/data/keyword/22114104 24].
#Wright B, Stanley RG, Kaiser WJ, Mills DJ, Gibbins JM,  (2011) &quot;Analysis of protein networks in resting and collagen receptor (GPVI)-stimulated platelet sub-proteomes.&quot; <i>Proteomics</i> <b>11</b>(23):4588&ndash;92; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22114104 22114104]; doi: [https://dx.doi.org/10.1002/pmic.201100410 10.1002/pmic.201100410]; GPMDB: [http://gpmdb.org/data/keyword/22114104 24].
-
#Malmström J, Karlsson C, Nordenfelt P, Ossola R, Weisser H, Quandt A, Hansson K, Aebersold R, Malmström L, Björck L,  (2012) &quot;Streptococcus pyogenes in human plasma: adaptive mechanisms analyzed by mass spectrometry-based proteomics.&quot; <i>J Biol Chem</i> <b>287</b>(2):1415&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22117078 22117078]; doi: [https://dx.doi.org/10.1074/jbc.M111.267674 10.1074/jbc.M111.267674]; GPMDB: [http://gpmdb.org/data/keyword/22117078 41].
+
#Malmström J, Karlsson C, Nordenfelt P, Ossola R, Weisser H, Quandt A, Hansson K, Aebersold R, Malmström L, Björck L,  (2012) &quot;Streptococcus pyogenes in human plasma: adaptive mechanisms analyzed by mass spectrometry-based proteomics.&quot; <i>J Biol Chem</i> <b>287</b>(2):1415&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22117078 22117078]; doi: [https://dx.doi.org/10.1074/jbc.M111.267674 10.1074/jbc.M111.267674]; GPMDB: [http://gpmdb.org/data/keyword/22117078 41].
#Christianson JC, Olzmann JA, Shaler TA, Sowa ME, Bennett EJ, Richter CM, Tyler RE, Greenblatt EJ, Harper JW, Kopito RR,  (2011) &quot;Defining human ERAD networks through an integrative mapping strategy.&quot; <i>Nat Cell Biol</i> <b>14</b>(1):93&ndash;105; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22119785 22119785]; doi: [https://dx.doi.org/10.1038/ncb2383 10.1038/ncb2383]; GPMDB: [http://gpmdb.org/data/keyword/22119785 94].
#Christianson JC, Olzmann JA, Shaler TA, Sowa ME, Bennett EJ, Richter CM, Tyler RE, Greenblatt EJ, Harper JW, Kopito RR,  (2011) &quot;Defining human ERAD networks through an integrative mapping strategy.&quot; <i>Nat Cell Biol</i> <b>14</b>(1):93&ndash;105; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22119785 22119785]; doi: [https://dx.doi.org/10.1038/ncb2383 10.1038/ncb2383]; GPMDB: [http://gpmdb.org/data/keyword/22119785 94].
-
#Journet A, Klein G, Brugière S, Vandenbrouck Y, Chapel A, Kieffer S, Bruley C, Masselon C, Aubry L,  (2012) &quot;Investigating the macropinocytic proteome of Dictyostelium amoebae by high-resolution mass spectrometry.&quot; <i>Proteomics</i> <b>12</b>(2):241&ndash;5; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22120990 22120990]; doi: [https://dx.doi.org/10.1002/pmic.201100313 10.1002/pmic.201100313]; GPMDB: [http://gpmdb.org/data/keyword/22120990 1].
+
#Journet A, Klein G, Brugière S, Vandenbrouck Y, Chapel A, Kieffer S, Bruley C, Masselon C, Aubry L,  (2012) &quot;Investigating the macropinocytic proteome of Dictyostelium amoebae by high-resolution mass spectrometry.&quot; <i>Proteomics</i> <b>12</b>(2):241&ndash;5; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22120990 22120990]; doi: [https://dx.doi.org/10.1002/pmic.201100313 10.1002/pmic.201100313]; GPMDB: [http://gpmdb.org/data/keyword/22120990 1].
#Murray CI, Uhrigshardt H, O'Meally RN, Cole RN, Van Eyk JE,  (2012) &quot;Identification and quantification of S-nitrosylation by cysteine reactive tandem mass tag switch assay.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(2):M111.013441; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22126794 22126794]; doi: [https://dx.doi.org/10.1074/mcp.M111.013441 10.1074/mcp.M111.013441]; GPMDB: [http://gpmdb.org/data/keyword/22126794 3].
#Murray CI, Uhrigshardt H, O'Meally RN, Cole RN, Van Eyk JE,  (2012) &quot;Identification and quantification of S-nitrosylation by cysteine reactive tandem mass tag switch assay.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(2):M111.013441; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22126794 22126794]; doi: [https://dx.doi.org/10.1074/mcp.M111.013441 10.1074/mcp.M111.013441]; GPMDB: [http://gpmdb.org/data/keyword/22126794 3].
#Bischof S, Baerenfaller K, Wildhaber T, Troesch R, Vidi PA, Roschitzki B, Hirsch-Hoffmann M, Hennig L, Kessler F, Gruissem W, Baginsky S,  (2011) &quot;Plastid proteome assembly without Toc159: photosynthetic protein import and accumulation of N-acetylated plastid precursor proteins.&quot; <i>Plant Cell</i> <b>23</b>(11):3911&ndash;28; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22128122 22128122]; doi: [https://dx.doi.org/10.1105/tpc.111.092882 10.1105/tpc.111.092882]; GPMDB: [http://gpmdb.org/data/keyword/22128122 6].
#Bischof S, Baerenfaller K, Wildhaber T, Troesch R, Vidi PA, Roschitzki B, Hirsch-Hoffmann M, Hennig L, Kessler F, Gruissem W, Baginsky S,  (2011) &quot;Plastid proteome assembly without Toc159: photosynthetic protein import and accumulation of N-acetylated plastid precursor proteins.&quot; <i>Plant Cell</i> <b>23</b>(11):3911&ndash;28; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22128122 22128122]; doi: [https://dx.doi.org/10.1105/tpc.111.092882 10.1105/tpc.111.092882]; GPMDB: [http://gpmdb.org/data/keyword/22128122 6].
#Prasad TS, Harsha HC, Keerthikumar S, Sekhar NR, Selvan LD, Kumar P, Pinto SM, Muthusamy B, Subbannayya Y, Renuse S, Chaerkady R, Mathur PP, Ravikumar R, Pandey A,  (2012) &quot;Proteogenomic analysis of Candida glabrata using high resolution mass spectrometry.&quot; <i>J Proteome Res</i> <b>11</b>(1):247&ndash;60; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22129275 22129275]; doi: [https://dx.doi.org/10.1021/pr200827k 10.1021/pr200827k]; GPMDB: [http://gpmdb.org/data/keyword/22129275 70].
#Prasad TS, Harsha HC, Keerthikumar S, Sekhar NR, Selvan LD, Kumar P, Pinto SM, Muthusamy B, Subbannayya Y, Renuse S, Chaerkady R, Mathur PP, Ravikumar R, Pandey A,  (2012) &quot;Proteogenomic analysis of Candida glabrata using high resolution mass spectrometry.&quot; <i>J Proteome Res</i> <b>11</b>(1):247&ndash;60; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22129275 22129275]; doi: [https://dx.doi.org/10.1021/pr200827k 10.1021/pr200827k]; GPMDB: [http://gpmdb.org/data/keyword/22129275 70].
-
#Thomas L, Hodgson DA, Wentzel A, Nieselt K, Ellingsen TE, Moore J, Morrissey ER, Legaie R, STREAM Consortium, Wohlleben W, Rodríguez-García A, Martín JF, Burroughs NJ, Wellington EM, Smith MC,  (2012) &quot;Metabolic switches and adaptations deduced from the proteomes of Streptomyces coelicolor wild type and phoP mutant grown in batch culture.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(2):M111.013797; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22147733 22147733]; doi: [https://dx.doi.org/10.1074/mcp.M111.013797 10.1074/mcp.M111.013797]; GPMDB: [http://gpmdb.org/data/keyword/22147733 64].
+
#Thomas L, Hodgson DA, Wentzel A, Nieselt K, Ellingsen TE, Moore J, Morrissey ER, Legaie R, STREAM Consortium, Wohlleben W, Rodríguez-García A, Martín JF, Burroughs NJ, Wellington EM, Smith MC,  (2012) &quot;Metabolic switches and adaptations deduced from the proteomes of Streptomyces coelicolor wild type and phoP mutant grown in batch culture.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(2):M111.013797; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22147733 22147733]; doi: [https://dx.doi.org/10.1074/mcp.M111.013797 10.1074/mcp.M111.013797]; GPMDB: [http://gpmdb.org/data/keyword/22147733 64].
#Choi DS, Yang JS, Choi EJ, Jang SC, Park S, Kim OY, Hwang D, Kim KP, Kim YK, Kim S, Gho YS,  (2012) &quot;The protein interaction network of extracellular vesicles derived from human colorectal cancer cells.&quot; <i>J Proteome Res</i> <b>11</b>(2):1144&ndash;51; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22149170 22149170]; doi: [https://dx.doi.org/10.1021/pr200842h 10.1021/pr200842h]; GPMDB: [http://gpmdb.org/data/keyword/22149170 1].
#Choi DS, Yang JS, Choi EJ, Jang SC, Park S, Kim OY, Hwang D, Kim KP, Kim YK, Kim S, Gho YS,  (2012) &quot;The protein interaction network of extracellular vesicles derived from human colorectal cancer cells.&quot; <i>J Proteome Res</i> <b>11</b>(2):1144&ndash;51; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22149170 22149170]; doi: [https://dx.doi.org/10.1021/pr200842h 10.1021/pr200842h]; GPMDB: [http://gpmdb.org/data/keyword/22149170 1].
#Naba A, Clauser KR, Hoersch S, Liu H, Carr SA, Hynes RO,  (2012) &quot;The matrisome: in silico definition and in vivo characterization by proteomics of normal and tumor extracellular matrices.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(4):M111.014647; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22159717 22159717]; doi: [https://dx.doi.org/10.1074/mcp.M111.014647 10.1074/mcp.M111.014647]; GPMDB: [http://gpmdb.org/data/keyword/22159717 98].
#Naba A, Clauser KR, Hoersch S, Liu H, Carr SA, Hynes RO,  (2012) &quot;The matrisome: in silico definition and in vivo characterization by proteomics of normal and tumor extracellular matrices.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(4):M111.014647; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22159717 22159717]; doi: [https://dx.doi.org/10.1074/mcp.M111.014647 10.1074/mcp.M111.014647]; GPMDB: [http://gpmdb.org/data/keyword/22159717 98].
-
#Michalski A, Damoc E, Lange O, Denisov E, Nolting D, Müller M, Viner R, Schwartz J, Remes P, Belford M, Dunyach JJ, Cox J, Horning S, Mann M, Makarov A,  (2012) &quot;Ultra high resolution linear ion trap Orbitrap mass spectrometer (Orbitrap Elite) facilitates top down LC MS/MS and versatile peptide fragmentation modes.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(3):O111.013698; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22159718 22159718]; doi: [https://dx.doi.org/10.1074/mcp.O111.013698 10.1074/mcp.O111.013698]; GPMDB: [http://gpmdb.org/data/keyword/22159718 22].
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#Michalski A, Damoc E, Lange O, Denisov E, Nolting D, Müller M, Viner R, Schwartz J, Remes P, Belford M, Dunyach JJ, Cox J, Horning S, Mann M, Makarov A,  (2012) &quot;Ultra high resolution linear ion trap Orbitrap mass spectrometer (Orbitrap Elite) facilitates top down LC MS/MS and versatile peptide fragmentation modes.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(3):O111.013698; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22159718 22159718]; doi: [https://dx.doi.org/10.1074/mcp.O111.013698 10.1074/mcp.O111.013698]; GPMDB: [http://gpmdb.org/data/keyword/22159718 22].
#Martins-de-Souza D, Guest PC, Guest FL, Bauder C, Rahmoune H, Pietsch S, Roeber S, Kretzschmar H, Mann D, Baborie A, Bahn S,  (2012) &quot;Characterization of the human primary visual cortex and cerebellum proteomes using shotgun mass spectrometry-data-independent analyses.&quot; <i>Proteomics</i> <b>12</b>(3):500&ndash;4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22162416 22162416]; doi: [https://dx.doi.org/10.1002/pmic.201100476 10.1002/pmic.201100476]; GPMDB: [http://gpmdb.org/data/keyword/22162416 26].
#Martins-de-Souza D, Guest PC, Guest FL, Bauder C, Rahmoune H, Pietsch S, Roeber S, Kretzschmar H, Mann D, Baborie A, Bahn S,  (2012) &quot;Characterization of the human primary visual cortex and cerebellum proteomes using shotgun mass spectrometry-data-independent analyses.&quot; <i>Proteomics</i> <b>12</b>(3):500&ndash;4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22162416 22162416]; doi: [https://dx.doi.org/10.1002/pmic.201100476 10.1002/pmic.201100476]; GPMDB: [http://gpmdb.org/data/keyword/22162416 26].
#Burkhart JM, Schumbrutzki C, Wortelkamp S, Sickmann A, Zahedi RP,  (2012) &quot;Systematic and quantitative comparison of digest efficiency and specificity reveals the impact of trypsin quality on MS-based proteomics.&quot; <i>J Proteomics</i> <b>75</b>(4):1454&ndash;62; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22166745 22166745]; doi: [https://dx.doi.org/10.1016/j.jprot.2011.11.016 10.1016/j.jprot.2011.11.016]; GPMDB: [http://gpmdb.org/data/keyword/22166745 1].
#Burkhart JM, Schumbrutzki C, Wortelkamp S, Sickmann A, Zahedi RP,  (2012) &quot;Systematic and quantitative comparison of digest efficiency and specificity reveals the impact of trypsin quality on MS-based proteomics.&quot; <i>J Proteomics</i> <b>75</b>(4):1454&ndash;62; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22166745 22166745]; doi: [https://dx.doi.org/10.1016/j.jprot.2011.11.016 10.1016/j.jprot.2011.11.016]; GPMDB: [http://gpmdb.org/data/keyword/22166745 1].
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#Mertins P, Udeshi ND, Clauser KR, Mani DR, Patel J, Ong SE, Jaffe JD, Carr SA,  (2012) &quot;iTRAQ labeling is superior to mTRAQ for quantitative global proteomics and phosphoproteomics.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(6):M111.014423; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22210691 22210691]; doi: [https://dx.doi.org/10.1074/mcp.M111.014423 10.1074/mcp.M111.014423]; GPMDB: [http://gpmdb.org/data/keyword/22210691 32].
#Mertins P, Udeshi ND, Clauser KR, Mani DR, Patel J, Ong SE, Jaffe JD, Carr SA,  (2012) &quot;iTRAQ labeling is superior to mTRAQ for quantitative global proteomics and phosphoproteomics.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(6):M111.014423; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22210691 22210691]; doi: [https://dx.doi.org/10.1074/mcp.M111.014423 10.1074/mcp.M111.014423]; GPMDB: [http://gpmdb.org/data/keyword/22210691 32].
#Elmore JM, Liu J, Smith B, Phinney B, Coaker G,  (2012) &quot;Quantitative proteomics reveals dynamic changes in the plasma membrane during Arabidopsis immune signaling.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(4):M111.014555; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22215637 22215637]; doi: [https://dx.doi.org/10.1074/mcp.M111.014555 10.1074/mcp.M111.014555]; GPMDB: [http://gpmdb.org/data/keyword/22215637 90].
#Elmore JM, Liu J, Smith B, Phinney B, Coaker G,  (2012) &quot;Quantitative proteomics reveals dynamic changes in the plasma membrane during Arabidopsis immune signaling.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(4):M111.014555; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22215637 22215637]; doi: [https://dx.doi.org/10.1074/mcp.M111.014555 10.1074/mcp.M111.014555]; GPMDB: [http://gpmdb.org/data/keyword/22215637 90].
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#König S, Nimtz M, Scheiter M, Ljunggren HG, Bryceson YT, Jänsch L,  (2012) &quot;Kinome analysis of receptor-induced phosphorylation in human natural killer cells.&quot; <i>PLoS One</i> <b>7</b>(1):e29672; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22238634 22238634]; doi: [https://dx.doi.org/10.1371/journal.pone.0029672 10.1371/journal.pone.0029672]; GPMDB: [http://gpmdb.org/data/keyword/22238634 3].
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#König S, Nimtz M, Scheiter M, Ljunggren HG, Bryceson YT, Jänsch L,  (2012) &quot;Kinome analysis of receptor-induced phosphorylation in human natural killer cells.&quot; <i>PLoS One</i> <b>7</b>(1):e29672; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22238634 22238634]; doi: [https://dx.doi.org/10.1371/journal.pone.0029672 10.1371/journal.pone.0029672]; GPMDB: [http://gpmdb.org/data/keyword/22238634 3].
#Franklin S, Chen H, Mitchell-Jordan S, Ren S, Wang Y, Vondriska TM,  (2012) &quot;Quantitative analysis of the chromatin proteome in disease reveals remodeling principles and identifies high mobility group protein B2 as a regulator of hypertrophic growth.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(6):M111.014258; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22270000 22270000]; doi: [https://dx.doi.org/10.1074/mcp.M111.014258 10.1074/mcp.M111.014258]; GPMDB: [http://gpmdb.org/data/keyword/22270000 75].
#Franklin S, Chen H, Mitchell-Jordan S, Ren S, Wang Y, Vondriska TM,  (2012) &quot;Quantitative analysis of the chromatin proteome in disease reveals remodeling principles and identifies high mobility group protein B2 as a regulator of hypertrophic growth.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(6):M111.014258; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22270000 22270000]; doi: [https://dx.doi.org/10.1074/mcp.M111.014258 10.1074/mcp.M111.014258]; GPMDB: [http://gpmdb.org/data/keyword/22270000 75].
-
#Capriotti AL, Caracciolo G, Caruso G, Cavaliere C, Pozzi D, Samperi R, Laganà A,  (2013) &quot;Label-free quantitative analysis for studying the interactions between nanoparticles and plasma proteins.&quot; <i>Anal Bioanal Chem</i> <b>405</b>(2-3):635&ndash;45; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22274284 22274284]; doi: [https://dx.doi.org/10.1007/s00216-011-5691-y 10.1007/s00216-011-5691-y]; GPMDB: [http://gpmdb.org/data/keyword/22274284 45].
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#Capriotti AL, Caracciolo G, Caruso G, Cavaliere C, Pozzi D, Samperi R, Laganà A,  (2013) &quot;Label-free quantitative analysis for studying the interactions between nanoparticles and plasma proteins.&quot; <i>Anal Bioanal Chem</i> <b>405</b>(2-3):635&ndash;45; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22274284 22274284]; doi: [https://dx.doi.org/10.1007/s00216-011-5691-y 10.1007/s00216-011-5691-y]; GPMDB: [http://gpmdb.org/data/keyword/22274284 45].
#Lundquist PK, Poliakov A, Bhuiyan NH, Zybailov B, Sun Q, van Wijk KJ,  (2012) &quot;The functional network of the Arabidopsis plastoglobule proteome based on quantitative proteomics and genome-wide coexpression analysis.&quot; <i>Plant Physiol</i> <b>158</b>(3):1172&ndash;92; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22274653 22274653]; doi: [https://dx.doi.org/10.1104/pp.111.193144 10.1104/pp.111.193144]; GPMDB: [http://gpmdb.org/data/keyword/22274653 20].
#Lundquist PK, Poliakov A, Bhuiyan NH, Zybailov B, Sun Q, van Wijk KJ,  (2012) &quot;The functional network of the Arabidopsis plastoglobule proteome based on quantitative proteomics and genome-wide coexpression analysis.&quot; <i>Plant Physiol</i> <b>158</b>(3):1172&ndash;92; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22274653 22274653]; doi: [https://dx.doi.org/10.1104/pp.111.193144 10.1104/pp.111.193144]; GPMDB: [http://gpmdb.org/data/keyword/22274653 20].
#Geiger T, Wehner A, Schaab C, Cox J, Mann M,  (2012) &quot;Comparative proteomic analysis of eleven common cell lines reveals ubiquitous but varying expression of most proteins.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(3):M111.014050; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22278370 22278370]; doi: [https://dx.doi.org/10.1074/mcp.M111.014050 10.1074/mcp.M111.014050]; GPMDB: [http://gpmdb.org/data/keyword/22278370 181].
#Geiger T, Wehner A, Schaab C, Cox J, Mann M,  (2012) &quot;Comparative proteomic analysis of eleven common cell lines reveals ubiquitous but varying expression of most proteins.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(3):M111.014050; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22278370 22278370]; doi: [https://dx.doi.org/10.1074/mcp.M111.014050 10.1074/mcp.M111.014050]; GPMDB: [http://gpmdb.org/data/keyword/22278370 181].
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#Vranakis I, De Bock PJ, Papadioti A, Tselentis Y, Gevaert K, Tsiotis G, Psaroulaki A,  (2012) &quot;Quantitative proteome profiling of C. burnetii under tetracycline stress conditions.&quot; <i>PLoS One</i> <b>7</b>(3):e33599; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22438959 22438959]; doi: [https://dx.doi.org/10.1371/journal.pone.0033599 10.1371/journal.pone.0033599]; GPMDB: [http://gpmdb.org/data/keyword/22438959 2].
#Vranakis I, De Bock PJ, Papadioti A, Tselentis Y, Gevaert K, Tsiotis G, Psaroulaki A,  (2012) &quot;Quantitative proteome profiling of C. burnetii under tetracycline stress conditions.&quot; <i>PLoS One</i> <b>7</b>(3):e33599; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22438959 22438959]; doi: [https://dx.doi.org/10.1371/journal.pone.0033599 10.1371/journal.pone.0033599]; GPMDB: [http://gpmdb.org/data/keyword/22438959 2].
#Deeb SJ, D'Souza RC, Cox J, Schmidt-Supprian M, Mann M,  (2012) &quot;Super-SILAC allows classification of diffuse large B-cell lymphoma subtypes by their protein expression profiles.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(5):77&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22442255 22442255]; doi: [https://dx.doi.org/10.1074/mcp.M111.015362 10.1074/mcp.M111.015362]; GPMDB: [http://gpmdb.org/data/keyword/22442255 60].
#Deeb SJ, D'Souza RC, Cox J, Schmidt-Supprian M, Mann M,  (2012) &quot;Super-SILAC allows classification of diffuse large B-cell lymphoma subtypes by their protein expression profiles.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(5):77&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22442255 22442255]; doi: [https://dx.doi.org/10.1074/mcp.M111.015362 10.1074/mcp.M111.015362]; GPMDB: [http://gpmdb.org/data/keyword/22442255 60].
-
#Tondeleir D, Lambrechts A, Müller M, Jonckheere V, Doll T, Vandamme D, Bakkali K, Waterschoot D, Lemaistre M, Debeir O, Decaestecker C, Hinz B, Staes A, Timmerman E, Colaert N, Gevaert K, Vandekerckhove J, Ampe C,  (2012) &quot;Cells lacking β-actin are genetically reprogrammed and maintain conditional migratory capacity.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(8):255&ndash;71; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22448045 22448045]; doi: [https://dx.doi.org/10.1074/mcp.M111.015099 10.1074/mcp.M111.015099]; GPMDB: [http://gpmdb.org/data/keyword/22448045 2].
+
#Tondeleir D, Lambrechts A, Müller M, Jonckheere V, Doll T, Vandamme D, Bakkali K, Waterschoot D, Lemaistre M, Debeir O, Decaestecker C, Hinz B, Staes A, Timmerman E, Colaert N, Gevaert K, Vandekerckhove J, Ampe C,  (2012) &quot;Cells lacking β-actin are genetically reprogrammed and maintain conditional migratory capacity.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(8):255&ndash;71; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22448045 22448045]; doi: [https://dx.doi.org/10.1074/mcp.M111.015099 10.1074/mcp.M111.015099]; GPMDB: [http://gpmdb.org/data/keyword/22448045 2].
#Schrimpe-Rutledge AC, Jones MB, Chauhan S, Purvine SO, Sanford JA, Monroe ME, Brewer HM, Payne SH, Ansong C, Frank BC, Smith RD, Peterson SN, Motin VL, Adkins JN,  (2012) &quot;Comparative omics-driven genome annotation refinement: application across Yersiniae.&quot; <i>PLoS One</i> <b>7</b>(3):e33903; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22479471 22479471]; doi: [https://dx.doi.org/10.1371/journal.pone.0033903 10.1371/journal.pone.0033903]; GPMDB: [http://gpmdb.org/data/keyword/22479471 226].
#Schrimpe-Rutledge AC, Jones MB, Chauhan S, Purvine SO, Sanford JA, Monroe ME, Brewer HM, Payne SH, Ansong C, Frank BC, Smith RD, Peterson SN, Motin VL, Adkins JN,  (2012) &quot;Comparative omics-driven genome annotation refinement: application across Yersiniae.&quot; <i>PLoS One</i> <b>7</b>(3):e33903; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22479471 22479471]; doi: [https://dx.doi.org/10.1371/journal.pone.0033903 10.1371/journal.pone.0033903]; GPMDB: [http://gpmdb.org/data/keyword/22479471 226].
-
#Wright JC, Collins MO, Yu L, Käll L, Brosch M, Choudhary JS,  (2012) &quot;Enhanced peptide identification by electron transfer dissociation using an improved Mascot Percolator.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(8):478&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22493177 22493177]; doi: [https://dx.doi.org/10.1074/mcp.O111.014522 10.1074/mcp.O111.014522]; GPMDB: [http://gpmdb.org/data/keyword/22493177 8].
+
#Wright JC, Collins MO, Yu L, Käll L, Brosch M, Choudhary JS,  (2012) &quot;Enhanced peptide identification by electron transfer dissociation using an improved Mascot Percolator.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(8):478&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22493177 22493177]; doi: [https://dx.doi.org/10.1074/mcp.O111.014522 10.1074/mcp.O111.014522]; GPMDB: [http://gpmdb.org/data/keyword/22493177 8].
#Franz-Wachtel M, Eisler SA, Krug K, Wahl S, Carpy A, Nordheim A, Pfizenmaier K, Hausser A, Macek B,  (2012) &quot;Global detection of protein kinase D-dependent phosphorylation events in nocodazole-treated human cells.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(5):160&ndash;70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22496350 22496350]; doi: [https://dx.doi.org/10.1074/mcp.M111.016014 10.1074/mcp.M111.016014]; GPMDB: [http://gpmdb.org/data/keyword/22496350 18].
#Franz-Wachtel M, Eisler SA, Krug K, Wahl S, Carpy A, Nordheim A, Pfizenmaier K, Hausser A, Macek B,  (2012) &quot;Global detection of protein kinase D-dependent phosphorylation events in nocodazole-treated human cells.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(5):160&ndash;70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22496350 22496350]; doi: [https://dx.doi.org/10.1074/mcp.M111.016014 10.1074/mcp.M111.016014]; GPMDB: [http://gpmdb.org/data/keyword/22496350 18].
#Ferrando IM, Chaerkady R, Zhong J, Molina H, Jacob HK, Herbst-Robinson K, Dancy BM, Katju V, Bose R, Zhang J, Pandey A, Cole PA,  (2012) &quot;Identification of targets of c-Src tyrosine kinase by chemical complementation and phosphoproteomics.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(8):355&ndash;69; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22499769 22499769]; doi: [https://dx.doi.org/10.1074/mcp.M111.015750 10.1074/mcp.M111.015750]; GPMDB: [http://gpmdb.org/data/keyword/22499769 7].
#Ferrando IM, Chaerkady R, Zhong J, Molina H, Jacob HK, Herbst-Robinson K, Dancy BM, Katju V, Bose R, Zhang J, Pandey A, Cole PA,  (2012) &quot;Identification of targets of c-Src tyrosine kinase by chemical complementation and phosphoproteomics.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(8):355&ndash;69; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22499769 22499769]; doi: [https://dx.doi.org/10.1074/mcp.M111.015750 10.1074/mcp.M111.015750]; GPMDB: [http://gpmdb.org/data/keyword/22499769 7].
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#Urbaniak MD, Guther ML, Ferguson MA,  (2012) &quot;Comparative SILAC proteomic analysis of Trypanosoma brucei bloodstream and procyclic lifecycle stages.&quot; <i>PLoS One</i> <b>7</b>(5):e36619; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22574199 22574199]; doi: [https://dx.doi.org/10.1371/journal.pone.0036619 10.1371/journal.pone.0036619]; GPMDB: [http://gpmdb.org/data/keyword/22574199 11].
#Urbaniak MD, Guther ML, Ferguson MA,  (2012) &quot;Comparative SILAC proteomic analysis of Trypanosoma brucei bloodstream and procyclic lifecycle stages.&quot; <i>PLoS One</i> <b>7</b>(5):e36619; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22574199 22574199]; doi: [https://dx.doi.org/10.1371/journal.pone.0036619 10.1371/journal.pone.0036619]; GPMDB: [http://gpmdb.org/data/keyword/22574199 11].
#Ivaldi C, Martin BR, Kieffer-Jaquinod S, Chapel A, Levade T, Garin J, Journet A,  (2012) &quot;Proteomic analysis of S-acylated proteins in human B cells reveals palmitoylation of the immune regulators CD20 and CD23.&quot; <i>PLoS One</i> <b>7</b>(5):e37187; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22615937 22615937]; doi: [https://dx.doi.org/10.1371/journal.pone.0037187 10.1371/journal.pone.0037187]; GPMDB: [http://gpmdb.org/data/keyword/22615937 2].
#Ivaldi C, Martin BR, Kieffer-Jaquinod S, Chapel A, Levade T, Garin J, Journet A,  (2012) &quot;Proteomic analysis of S-acylated proteins in human B cells reveals palmitoylation of the immune regulators CD20 and CD23.&quot; <i>PLoS One</i> <b>7</b>(5):e37187; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22615937 22615937]; doi: [https://dx.doi.org/10.1371/journal.pone.0037187 10.1371/journal.pone.0037187]; GPMDB: [http://gpmdb.org/data/keyword/22615937 2].
-
#Byron A, Humphries JD, Craig SE, Knight D, Humphries MJ,  (2012) &quot;Proteomic analysis of α4β1 integrin adhesion complexes reveals α-subunit-dependent protein recruitment.&quot; <i>Proteomics</i> <b>12</b>(13):2107&ndash;14; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22623428 22623428]; doi: [https://dx.doi.org/10.1002/pmic.201100487 10.1002/pmic.201100487]; GPMDB: [http://gpmdb.org/data/keyword/22623428 18].
+
#Byron A, Humphries JD, Craig SE, Knight D, Humphries MJ,  (2012) &quot;Proteomic analysis of α4β1 integrin adhesion complexes reveals α-subunit-dependent protein recruitment.&quot; <i>Proteomics</i> <b>12</b>(13):2107&ndash;14; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22623428 22623428]; doi: [https://dx.doi.org/10.1002/pmic.201100487 10.1002/pmic.201100487]; GPMDB: [http://gpmdb.org/data/keyword/22623428 18].
#Pisitkun T, Gandolfo MT, Das S, Knepper MA, Bagnasco SM,  (2012) &quot;Application of systems biology principles to protein biomarker discovery: urinary exosomal proteome in renal transplantation.&quot; <i>Proteomics Clin Appl</i> <b>6</b>(5-6):268&ndash;78; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22641613 22641613]; doi: [https://dx.doi.org/10.1002/prca.201100108 10.1002/prca.201100108]; GPMDB: [http://gpmdb.org/data/keyword/22641613 7].
#Pisitkun T, Gandolfo MT, Das S, Knepper MA, Bagnasco SM,  (2012) &quot;Application of systems biology principles to protein biomarker discovery: urinary exosomal proteome in renal transplantation.&quot; <i>Proteomics Clin Appl</i> <b>6</b>(5-6):268&ndash;78; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22641613 22641613]; doi: [https://dx.doi.org/10.1002/prca.201100108 10.1002/prca.201100108]; GPMDB: [http://gpmdb.org/data/keyword/22641613 7].
#Coffill CR, Muller PA, Oh HK, Neo SP, Hogue KA, Cheok CF, Vousden KH, Lane DP, Blackstock WP, Gunaratne J,  (2012) &quot;Mutant p53 interactome identifies nardilysin as a p53R273H-specific binding partner that promotes invasion.&quot; <i>EMBO Rep</i> <b>13</b>(7):638&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22653443 22653443]; doi: [https://dx.doi.org/10.1038/embor.2012.74 10.1038/embor.2012.74]; GPMDB: [http://gpmdb.org/data/keyword/22653443 154].
#Coffill CR, Muller PA, Oh HK, Neo SP, Hogue KA, Cheok CF, Vousden KH, Lane DP, Blackstock WP, Gunaratne J,  (2012) &quot;Mutant p53 interactome identifies nardilysin as a p53R273H-specific binding partner that promotes invasion.&quot; <i>EMBO Rep</i> <b>13</b>(7):638&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22653443 22653443]; doi: [https://dx.doi.org/10.1038/embor.2012.74 10.1038/embor.2012.74]; GPMDB: [http://gpmdb.org/data/keyword/22653443 154].
#Castello A, Fischer B, Eichelbaum K, Horos R, Beckmann BM, Strein C, Davey NE, Humphreys DT, Preiss T, Steinmetz LM, Krijgsveld J, Hentze MW,  (2012) &quot;Insights into RNA biology from an atlas of mammalian mRNA-binding proteins.&quot; <i>Cell</i> <b>149</b>(6):1393&ndash;406; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22658674 22658674]; doi: [https://dx.doi.org/10.1016/j.cell.2012.04.031 10.1016/j.cell.2012.04.031]; GPMDB: [http://gpmdb.org/data/keyword/22658674 6].
#Castello A, Fischer B, Eichelbaum K, Horos R, Beckmann BM, Strein C, Davey NE, Humphreys DT, Preiss T, Steinmetz LM, Krijgsveld J, Hentze MW,  (2012) &quot;Insights into RNA biology from an atlas of mammalian mRNA-binding proteins.&quot; <i>Cell</i> <b>149</b>(6):1393&ndash;406; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22658674 22658674]; doi: [https://dx.doi.org/10.1016/j.cell.2012.04.031 10.1016/j.cell.2012.04.031]; GPMDB: [http://gpmdb.org/data/keyword/22658674 6].
-
#Rose CM, Venkateshwaran M, Volkening JD, Grimsrud PA, Maeda J, Bailey DJ, Park K, Howes-Podoll M, den Os D, Yeun LH, Westphall MS, Sussman MR, Ané JM, Coon JJ,  (2012) &quot;Rapid phosphoproteomic and transcriptomic changes in the rhizobia-legume symbiosis.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(9):724&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22683509 22683509]; doi: [https://dx.doi.org/10.1074/mcp.M112.019208 10.1074/mcp.M112.019208]; GPMDB: [http://gpmdb.org/data/keyword/22683509 382].
+
#Rose CM, Venkateshwaran M, Volkening JD, Grimsrud PA, Maeda J, Bailey DJ, Park K, Howes-Podoll M, den Os D, Yeun LH, Westphall MS, Sussman MR, Ané JM, Coon JJ,  (2012) &quot;Rapid phosphoproteomic and transcriptomic changes in the rhizobia-legume symbiosis.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(9):724&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22683509 22683509]; doi: [https://dx.doi.org/10.1074/mcp.M112.019208 10.1074/mcp.M112.019208]; GPMDB: [http://gpmdb.org/data/keyword/22683509 382].
-
#Vialás V, Perumal P, Gutierrez D, Ximénez-Embún P, Nombela C, Gil C, Chaffin WL,  (2012) &quot;Cell surface shaving of Candida albicans biofilms, hyphae, and yeast form cells.&quot; <i>Proteomics</i> <b>12</b>(14):2331&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22685022 22685022]; doi: [https://dx.doi.org/10.1002/pmic.201100588 10.1002/pmic.201100588]; GPMDB: [http://gpmdb.org/data/keyword/22685022 1].
+
#Vialás V, Perumal P, Gutierrez D, Ximénez-Embún P, Nombela C, Gil C, Chaffin WL,  (2012) &quot;Cell surface shaving of Candida albicans biofilms, hyphae, and yeast form cells.&quot; <i>Proteomics</i> <b>12</b>(14):2331&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22685022 22685022]; doi: [https://dx.doi.org/10.1002/pmic.201100588 10.1002/pmic.201100588]; GPMDB: [http://gpmdb.org/data/keyword/22685022 1].
-
#Muñoz J, Stange DE, Schepers AG, van de Wetering M, Koo BK, Itzkovitz S, Volckmann R, Kung KS, Koster J, Radulescu S, Myant K, Versteeg R, Sansom OJ, van Es JH, Barker N, van Oudenaarden A, Mohammed S, Heck AJ, Clevers H,  (2012) &quot;The Lgr5 intestinal stem cell signature: robust expression of proposed quiescent '+4' cell markers.&quot; <i>EMBO J</i> <b>31</b>(14):3079&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22692129 22692129]; doi: [https://dx.doi.org/10.1038/emboj.2012.166 10.1038/emboj.2012.166]; GPMDB: [http://gpmdb.org/data/keyword/22692129 106].
+
#Muñoz J, Stange DE, Schepers AG, van de Wetering M, Koo BK, Itzkovitz S, Volckmann R, Kung KS, Koster J, Radulescu S, Myant K, Versteeg R, Sansom OJ, van Es JH, Barker N, van Oudenaarden A, Mohammed S, Heck AJ, Clevers H,  (2012) &quot;The Lgr5 intestinal stem cell signature: robust expression of proposed quiescent '+4' cell markers.&quot; <i>EMBO J</i> <b>31</b>(14):3079&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22692129 22692129]; doi: [https://dx.doi.org/10.1038/emboj.2012.166 10.1038/emboj.2012.166]; GPMDB: [http://gpmdb.org/data/keyword/22692129 106].
#Rashid ST, Humphries JD, Byron A, Dhar A, Askari JA, Selley JN, Knight D, Goldin RD, Thursz M, Humphries MJ,  (2012) &quot;Proteomic analysis of extracellular matrix from the hepatic stellate cell line LX-2 identifies CYR61 and Wnt-5a as novel constituents of fibrotic liver.&quot; <i>J Proteome Res</i> <b>11</b>(8):4052&ndash;64; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22694338 22694338]; doi: [https://dx.doi.org/10.1021/pr3000927 10.1021/pr3000927]; GPMDB: [http://gpmdb.org/data/keyword/22694338 6].
#Rashid ST, Humphries JD, Byron A, Dhar A, Askari JA, Selley JN, Knight D, Goldin RD, Thursz M, Humphries MJ,  (2012) &quot;Proteomic analysis of extracellular matrix from the hepatic stellate cell line LX-2 identifies CYR61 and Wnt-5a as novel constituents of fibrotic liver.&quot; <i>J Proteome Res</i> <b>11</b>(8):4052&ndash;64; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22694338 22694338]; doi: [https://dx.doi.org/10.1021/pr3000927 10.1021/pr3000927]; GPMDB: [http://gpmdb.org/data/keyword/22694338 6].
#Guyonnet B, Zabet-Moghaddam M, SanFrancisco S, Cornwall GA,  (2012) &quot;Isolation and proteomic characterization of the mouse sperm acrosomal matrix.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(9):758&ndash;74; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22707618 22707618]; doi: [https://dx.doi.org/10.1074/mcp.M112.020339 10.1074/mcp.M112.020339]; GPMDB: [http://gpmdb.org/data/keyword/22707618 5].
#Guyonnet B, Zabet-Moghaddam M, SanFrancisco S, Cornwall GA,  (2012) &quot;Isolation and proteomic characterization of the mouse sperm acrosomal matrix.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(9):758&ndash;74; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22707618 22707618]; doi: [https://dx.doi.org/10.1074/mcp.M112.020339 10.1074/mcp.M112.020339]; GPMDB: [http://gpmdb.org/data/keyword/22707618 5].
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#Burgener A, Mogk K, Westmacott G, Plummer F, Ball B, Broliden K, Hasselrot K,  (2012) &quot;Salivary basic proline-rich proteins are elevated in HIV-exposed seronegative men who have sex with men.&quot; <i>AIDS</i> <b>26</b>(15):1857&ndash;67; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22824632 22824632]; doi: [https://dx.doi.org/10.1097/QAD.0b013e328357f79c 10.1097/QAD.0b013e328357f79c]; GPMDB: [http://gpmdb.org/data/keyword/22824632 2].
#Burgener A, Mogk K, Westmacott G, Plummer F, Ball B, Broliden K, Hasselrot K,  (2012) &quot;Salivary basic proline-rich proteins are elevated in HIV-exposed seronegative men who have sex with men.&quot; <i>AIDS</i> <b>26</b>(15):1857&ndash;67; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22824632 22824632]; doi: [https://dx.doi.org/10.1097/QAD.0b013e328357f79c 10.1097/QAD.0b013e328357f79c]; GPMDB: [http://gpmdb.org/data/keyword/22824632 2].
#Wejda M, Impens F, Takahashi N, Van Damme P, Gevaert K, Vandenabeele P,  (2012) &quot;Degradomics reveals that cleavage specificity profiles of caspase-2 and effector caspases are alike.&quot; <i>J Biol Chem</i> <b>287</b>(41):33983&ndash;95; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22825847 22825847]; doi: [https://dx.doi.org/10.1074/jbc.M112.384552 10.1074/jbc.M112.384552]; GPMDB: [http://gpmdb.org/data/keyword/22825847 1].
#Wejda M, Impens F, Takahashi N, Van Damme P, Gevaert K, Vandenabeele P,  (2012) &quot;Degradomics reveals that cleavage specificity profiles of caspase-2 and effector caspases are alike.&quot; <i>J Biol Chem</i> <b>287</b>(41):33983&ndash;95; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22825847 22825847]; doi: [https://dx.doi.org/10.1074/jbc.M112.384552 10.1074/jbc.M112.384552]; GPMDB: [http://gpmdb.org/data/keyword/22825847 1].
-
#Corthals A, Koller A, Martin DW, Rieger R, Chen EI, Bernaski M, Recagno G, Dávalos LM,  (2012) &quot;Detecting the immune system response of a 500 year-old Inca mummy.&quot; <i>PLoS One</i> <b>7</b>(7):e41244; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22848450 22848450]; doi: [https://dx.doi.org/10.1371/journal.pone.0041244 10.1371/journal.pone.0041244]; GPMDB: [http://gpmdb.org/data/keyword/22848450 12].
+
#Corthals A, Koller A, Martin DW, Rieger R, Chen EI, Bernaski M, Recagno G, Dávalos LM,  (2012) &quot;Detecting the immune system response of a 500 year-old Inca mummy.&quot; <i>PLoS One</i> <b>7</b>(7):e41244; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22848450 22848450]; doi: [https://dx.doi.org/10.1371/journal.pone.0041244 10.1371/journal.pone.0041244]; GPMDB: [http://gpmdb.org/data/keyword/22848450 12].
#Zijnge V, Kieselbach T, Oscarsson J,  (2012) &quot;Proteomics of protein secretion by Aggregatibacter actinomycetemcomitans.&quot; <i>PLoS One</i> <b>7</b>(7):e41662; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22848560 22848560]; doi: [https://dx.doi.org/10.1371/journal.pone.0041662 10.1371/journal.pone.0041662]; GPMDB: [http://gpmdb.org/data/keyword/22848560 171].
#Zijnge V, Kieselbach T, Oscarsson J,  (2012) &quot;Proteomics of protein secretion by Aggregatibacter actinomycetemcomitans.&quot; <i>PLoS One</i> <b>7</b>(7):e41662; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22848560 22848560]; doi: [https://dx.doi.org/10.1371/journal.pone.0041662 10.1371/journal.pone.0041662]; GPMDB: [http://gpmdb.org/data/keyword/22848560 171].
#Wen Q, Goldenson B, Silver SJ, Schenone M, Dancik V, Huang Z, Wang LZ, Lewis TA, An WF, Li X, Bray MA, Thiollier C, Diebold L, Gilles L, Vokes MS, Moore CB, Bliss-Moreau M, Verplank L, Tolliday NJ, Mishra R, Vemula S, Shi J, Wei L, Kapur R, Lopez CK, Gerby B, Ballerini P, Pflumio F, Gilliland DG, Goldberg L, Birger Y, Izraeli S, Gamis AS, Smith FO, Woods WG, Taub J, Scherer CA, Bradner JE, Goh BC, Mercher T, Carpenter AE, Gould RJ, Clemons PA, Carr SA, Root DE, Schreiber SL, Stern AM, Crispino JD,  (2012) &quot;Identification of regulators of polyploidization presents therapeutic targets for treatment of AMKL.&quot; <i>Cell</i> <b>150</b>(3):575&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22863010 22863010]; doi: [https://dx.doi.org/10.1016/j.cell.2012.06.032 10.1016/j.cell.2012.06.032]; GPMDB: [http://gpmdb.org/data/keyword/22863010 24].
#Wen Q, Goldenson B, Silver SJ, Schenone M, Dancik V, Huang Z, Wang LZ, Lewis TA, An WF, Li X, Bray MA, Thiollier C, Diebold L, Gilles L, Vokes MS, Moore CB, Bliss-Moreau M, Verplank L, Tolliday NJ, Mishra R, Vemula S, Shi J, Wei L, Kapur R, Lopez CK, Gerby B, Ballerini P, Pflumio F, Gilliland DG, Goldberg L, Birger Y, Izraeli S, Gamis AS, Smith FO, Woods WG, Taub J, Scherer CA, Bradner JE, Goh BC, Mercher T, Carpenter AE, Gould RJ, Clemons PA, Carr SA, Root DE, Schreiber SL, Stern AM, Crispino JD,  (2012) &quot;Identification of regulators of polyploidization presents therapeutic targets for treatment of AMKL.&quot; <i>Cell</i> <b>150</b>(3):575&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22863010 22863010]; doi: [https://dx.doi.org/10.1016/j.cell.2012.06.032 10.1016/j.cell.2012.06.032]; GPMDB: [http://gpmdb.org/data/keyword/22863010 24].
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#Toyofuku M, Roschitzki B, Riedel K, Eberl L,  (2012) &quot;Identification of proteins associated with the Pseudomonas aeruginosa biofilm extracellular matrix.&quot; <i>J Proteome Res</i> <b>11</b>(10):4906&ndash;15; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22909304 22909304]; doi: [https://dx.doi.org/10.1021/pr300395j 10.1021/pr300395j]; GPMDB: [http://gpmdb.org/data/keyword/22909304 4].
#Toyofuku M, Roschitzki B, Riedel K, Eberl L,  (2012) &quot;Identification of proteins associated with the Pseudomonas aeruginosa biofilm extracellular matrix.&quot; <i>J Proteome Res</i> <b>11</b>(10):4906&ndash;15; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22909304 22909304]; doi: [https://dx.doi.org/10.1021/pr300395j 10.1021/pr300395j]; GPMDB: [http://gpmdb.org/data/keyword/22909304 4].
#Jerebtsova M, Kumari N, Obuhkov Y, Nekhai S,  (2012) &quot;Adenoviral E4 gene stimulates secretion of pigmental epithelium derived factor (PEDF) that maintains long-term survival of human glomerulus-derived endothelial cells.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(11):1378&ndash;88; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22915824 22915824]; doi: [https://dx.doi.org/10.1074/mcp.M112.020313 10.1074/mcp.M112.020313]; GPMDB: [http://gpmdb.org/data/keyword/22915824 20].
#Jerebtsova M, Kumari N, Obuhkov Y, Nekhai S,  (2012) &quot;Adenoviral E4 gene stimulates secretion of pigmental epithelium derived factor (PEDF) that maintains long-term survival of human glomerulus-derived endothelial cells.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(11):1378&ndash;88; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22915824 22915824]; doi: [https://dx.doi.org/10.1074/mcp.M112.020313 10.1074/mcp.M112.020313]; GPMDB: [http://gpmdb.org/data/keyword/22915824 20].
-
#Baerenfaller K, Massonnet C, Walsh S, Baginsky S, Bühlmann P, Hennig L, Hirsch-Hoffmann M, Howell KA, Kahlau S, Radziejwoski A, Russenberger D, Rutishauser D, Small I, Stekhoven D, Sulpice R, Svozil J, Wuyts N, Stitt M, Hilson P, Granier C, Gruissem W,  (2012) &quot;Systems-based analysis of Arabidopsis leaf growth reveals adaptation to water deficit.&quot; <i>Mol Syst Biol</i> <b>8</b>:606; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22929616 22929616]; doi: [https://dx.doi.org/10.1038/msb.2012.39 10.1038/msb.2012.39]; GPMDB: [http://gpmdb.org/data/keyword/22929616 24].
+
#Baerenfaller K, Massonnet C, Walsh S, Baginsky S, Bühlmann P, Hennig L, Hirsch-Hoffmann M, Howell KA, Kahlau S, Radziejwoski A, Russenberger D, Rutishauser D, Small I, Stekhoven D, Sulpice R, Svozil J, Wuyts N, Stitt M, Hilson P, Granier C, Gruissem W,  (2012) &quot;Systems-based analysis of Arabidopsis leaf growth reveals adaptation to water deficit.&quot; <i>Mol Syst Biol</i> <b>8</b>:606; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22929616 22929616]; doi: [https://dx.doi.org/10.1038/msb.2012.39 10.1038/msb.2012.39]; GPMDB: [http://gpmdb.org/data/keyword/22929616 24].
#Havugimana PC, Hart GT, Nepusz T, Yang H, Turinsky AL, Li Z, Wang PI, Boutz DR, Fong V, Phanse S, Babu M, Craig SA, Hu P, Wan C, Vlasblom J, Dar VU, Bezginov A, Clark GW, Wu GC, Wodak SJ, Tillier ER, Paccanaro A, Marcotte EM, Emili A,  (2012) &quot;A census of human soluble protein complexes.&quot; <i>Cell</i> <b>150</b>(5):1068&ndash;81; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22939629 22939629]; doi: [https://dx.doi.org/10.1016/j.cell.2012.08.011 10.1016/j.cell.2012.08.011]; GPMDB: [http://gpmdb.org/data/keyword/22939629 214].
#Havugimana PC, Hart GT, Nepusz T, Yang H, Turinsky AL, Li Z, Wang PI, Boutz DR, Fong V, Phanse S, Babu M, Craig SA, Hu P, Wan C, Vlasblom J, Dar VU, Bezginov A, Clark GW, Wu GC, Wodak SJ, Tillier ER, Paccanaro A, Marcotte EM, Emili A,  (2012) &quot;A census of human soluble protein complexes.&quot; <i>Cell</i> <b>150</b>(5):1068&ndash;81; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22939629 22939629]; doi: [https://dx.doi.org/10.1016/j.cell.2012.08.011 10.1016/j.cell.2012.08.011]; GPMDB: [http://gpmdb.org/data/keyword/22939629 214].
#MacDonald ML, Ciccimaro E, Prakash A, Banerjee A, Seeholzer SH, Blair IA, Hahn CG,  (2012) &quot;Biochemical fractionation and stable isotope dilution liquid chromatography-mass spectrometry for targeted and microdomain-specific protein quantification in human postmortem brain tissue.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(12):1670&ndash;81; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22942359 22942359]; doi: [https://dx.doi.org/10.1074/mcp.M112.021766 10.1074/mcp.M112.021766]; GPMDB: [http://gpmdb.org/data/keyword/22942359 14].
#MacDonald ML, Ciccimaro E, Prakash A, Banerjee A, Seeholzer SH, Blair IA, Hahn CG,  (2012) &quot;Biochemical fractionation and stable isotope dilution liquid chromatography-mass spectrometry for targeted and microdomain-specific protein quantification in human postmortem brain tissue.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(12):1670&ndash;81; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22942359 22942359]; doi: [https://dx.doi.org/10.1074/mcp.M112.021766 10.1074/mcp.M112.021766]; GPMDB: [http://gpmdb.org/data/keyword/22942359 14].
-
#Vögtle FN, Burkhart JM, Rao S, Gerbeth C, Hinrichs J, Martinou JC, Chacinska A, Sickmann A, Zahedi RP, Meisinger C,  (2012) &quot;Intermembrane space proteome of yeast mitochondria.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(12):1840&ndash;52; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22984289 22984289]; doi: [https://dx.doi.org/10.1074/mcp.M112.021105 10.1074/mcp.M112.021105]; GPMDB: [http://gpmdb.org/data/keyword/22984289 30].
+
#Vögtle FN, Burkhart JM, Rao S, Gerbeth C, Hinrichs J, Martinou JC, Chacinska A, Sickmann A, Zahedi RP, Meisinger C,  (2012) &quot;Intermembrane space proteome of yeast mitochondria.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(12):1840&ndash;52; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22984289 22984289]; doi: [https://dx.doi.org/10.1074/mcp.M112.021105 10.1074/mcp.M112.021105]; GPMDB: [http://gpmdb.org/data/keyword/22984289 30].
#Kim Y, Ignatchenko V, Yao CQ, Kalatskaya I, Nyalwidhe JO, Lance RS, Gramolini AO, Troyer DA, Stein LD, Boutros PC, Medin JA, Semmes OJ, Drake RR, Kislinger T,  (2012) &quot;Identification of differentially expressed proteins in direct expressed prostatic secretions of men with organ-confined versus extracapsular prostate cancer.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(12):1870&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22986220 22986220]; doi: [https://dx.doi.org/10.1074/mcp.M112.017889 10.1074/mcp.M112.017889]; GPMDB: [http://gpmdb.org/data/keyword/22986220 320].
#Kim Y, Ignatchenko V, Yao CQ, Kalatskaya I, Nyalwidhe JO, Lance RS, Gramolini AO, Troyer DA, Stein LD, Boutros PC, Medin JA, Semmes OJ, Drake RR, Kislinger T,  (2012) &quot;Identification of differentially expressed proteins in direct expressed prostatic secretions of men with organ-confined versus extracapsular prostate cancer.&quot; <i>Mol Cell Proteomics</i> <b>11</b>(12):1870&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22986220 22986220]; doi: [https://dx.doi.org/10.1074/mcp.M112.017889 10.1074/mcp.M112.017889]; GPMDB: [http://gpmdb.org/data/keyword/22986220 320].
#Ene IV, Heilmann CJ, Sorgo AG, Walker LA, de Koster CG, Munro CA, Klis FM, Brown AJ,  (2012) &quot;Carbon source-induced reprogramming of the cell wall proteome and secretome modulates the adherence and drug resistance of the fungal pathogen Candida albicans.&quot; <i>Proteomics</i> <b>12</b>(21):3164&ndash;79; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22997008 22997008]; doi: [https://dx.doi.org/10.1002/pmic.201200228 10.1002/pmic.201200228]; GPMDB: [http://gpmdb.org/data/keyword/22997008 50].
#Ene IV, Heilmann CJ, Sorgo AG, Walker LA, de Koster CG, Munro CA, Klis FM, Brown AJ,  (2012) &quot;Carbon source-induced reprogramming of the cell wall proteome and secretome modulates the adherence and drug resistance of the fungal pathogen Candida albicans.&quot; <i>Proteomics</i> <b>12</b>(21):3164&ndash;79; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/22997008 22997008]; doi: [https://dx.doi.org/10.1002/pmic.201200228 10.1002/pmic.201200228]; GPMDB: [http://gpmdb.org/data/keyword/22997008 50].
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#Bleijerveld OB, Wijten P, Cappadona S, McClellan EA, Polat AN, Raijmakers R, Sels JW, Colle L, Grasso S, van den Toorn HW, van Breukelen B, Stubbs A, Pasterkamp G, Heck AJ, Hoefer IE, Scholten A,  (2012) &quot;Deep proteome profiling of circulating granulocytes reveals bactericidal/permeability-increasing protein as a biomarker for severe atherosclerotic coronary stenosis.&quot; <i>J Proteome Res</i> <b>11</b>(11):5235&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23020738 23020738]; doi: [https://dx.doi.org/10.1021/pr3004375 10.1021/pr3004375]; GPMDB: [http://gpmdb.org/data/keyword/23020738 163].
#Bleijerveld OB, Wijten P, Cappadona S, McClellan EA, Polat AN, Raijmakers R, Sels JW, Colle L, Grasso S, van den Toorn HW, van Breukelen B, Stubbs A, Pasterkamp G, Heck AJ, Hoefer IE, Scholten A,  (2012) &quot;Deep proteome profiling of circulating granulocytes reveals bactericidal/permeability-increasing protein as a biomarker for severe atherosclerotic coronary stenosis.&quot; <i>J Proteome Res</i> <b>11</b>(11):5235&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23020738 23020738]; doi: [https://dx.doi.org/10.1021/pr3004375 10.1021/pr3004375]; GPMDB: [http://gpmdb.org/data/keyword/23020738 163].
#Ren YR, Chaerkady R, Hu S, Wan J, Qian J, Zhu H, Pandey A, Kern SE,  (2012) &quot;Unbiased discovery of interactions at a control locus driving expression of the cancer-specific therapeutic and diagnostic target, mesothelin.&quot; <i>J Proteome Res</i> <b>11</b>(11):5301&ndash;10; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23025254 23025254]; doi: [https://dx.doi.org/10.1021/pr300797v 10.1021/pr300797v]; GPMDB: [http://gpmdb.org/data/keyword/23025254 67].
#Ren YR, Chaerkady R, Hu S, Wan J, Qian J, Zhu H, Pandey A, Kern SE,  (2012) &quot;Unbiased discovery of interactions at a control locus driving expression of the cancer-specific therapeutic and diagnostic target, mesothelin.&quot; <i>J Proteome Res</i> <b>11</b>(11):5301&ndash;10; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23025254 23025254]; doi: [https://dx.doi.org/10.1021/pr300797v 10.1021/pr300797v]; GPMDB: [http://gpmdb.org/data/keyword/23025254 67].
-
#Motohashi R, Rödiger A, Agne B, Baerenfaller K, Baginsky S,  (2012) &quot;Common and specific protein accumulation patterns in different albino/pale-green mutants reveals regulon organization at the proteome level.&quot; <i>Plant Physiol</i> <b>160</b>(4):2189&ndash;201; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23027667 23027667]; doi: [https://dx.doi.org/10.1104/pp.112.204032 10.1104/pp.112.204032]; GPMDB: [http://gpmdb.org/data/keyword/23027667 4].
+
#Motohashi R, Rödiger A, Agne B, Baerenfaller K, Baginsky S,  (2012) &quot;Common and specific protein accumulation patterns in different albino/pale-green mutants reveals regulon organization at the proteome level.&quot; <i>Plant Physiol</i> <b>160</b>(4):2189&ndash;201; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23027667 23027667]; doi: [https://dx.doi.org/10.1104/pp.112.204032 10.1104/pp.112.204032]; GPMDB: [http://gpmdb.org/data/keyword/23027667 4].
#Hu CW, Lin MH, Huang HC, Ku WC, Yi TH, Tsai CF, Chen YJ, Sugiyama N, Ishihama Y, Juan HF, Wu SH,  (2012) &quot;Phosphoproteomic analysis of Rhodopseudomonas palustris reveals the role of pyruvate phosphate dikinase phosphorylation in lipid production.&quot; <i>J Proteome Res</i> <b>11</b>(11):5362&ndash;75; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23030682 23030682]; doi: [https://dx.doi.org/10.1021/pr300582p 10.1021/pr300582p]; GPMDB: [http://gpmdb.org/data/keyword/23030682 12].
#Hu CW, Lin MH, Huang HC, Ku WC, Yi TH, Tsai CF, Chen YJ, Sugiyama N, Ishihama Y, Juan HF, Wu SH,  (2012) &quot;Phosphoproteomic analysis of Rhodopseudomonas palustris reveals the role of pyruvate phosphate dikinase phosphorylation in lipid production.&quot; <i>J Proteome Res</i> <b>11</b>(11):5362&ndash;75; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23030682 23030682]; doi: [https://dx.doi.org/10.1021/pr300582p 10.1021/pr300582p]; GPMDB: [http://gpmdb.org/data/keyword/23030682 12].
#Ubaida Mohien C, Colquhoun DR, Mathias DK, Gibbons JG, Armistead JS, Rodriguez MC, Rodriguez MH, Edwards NJ, Hartler J, Thallinger GG, Graham DR, Martinez-Barnetche J, Rokas A, Dinglasan RR,  (2013) &quot;A bioinformatics approach for integrated transcriptomic and proteomic comparative analyses of model and non-sequenced anopheline vectors of human malaria parasites.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(1):120&ndash;31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23082028 23082028]; doi: [https://dx.doi.org/10.1074/mcp.M112.019596 10.1074/mcp.M112.019596]; GPMDB: [http://gpmdb.org/data/keyword/23082028 97].
#Ubaida Mohien C, Colquhoun DR, Mathias DK, Gibbons JG, Armistead JS, Rodriguez MC, Rodriguez MH, Edwards NJ, Hartler J, Thallinger GG, Graham DR, Martinez-Barnetche J, Rokas A, Dinglasan RR,  (2013) &quot;A bioinformatics approach for integrated transcriptomic and proteomic comparative analyses of model and non-sequenced anopheline vectors of human malaria parasites.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(1):120&ndash;31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23082028 23082028]; doi: [https://dx.doi.org/10.1074/mcp.M112.019596 10.1074/mcp.M112.019596]; GPMDB: [http://gpmdb.org/data/keyword/23082028 97].
#Mathew R, Seiler MP, Scanlon ST, Mao AP, Constantinides MG, Bertozzi-Villa C, Singer JD, Bendelac A,  (2012) &quot;BTB-ZF factors recruit the E3 ligase cullin 3 to regulate lymphoid effector programs.&quot; <i>Nature</i> <b>491</b>(7425):618&ndash;21; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23086144 23086144]; doi: [https://dx.doi.org/10.1038/nature11548 10.1038/nature11548]; GPMDB: [http://gpmdb.org/data/keyword/23086144 8].
#Mathew R, Seiler MP, Scanlon ST, Mao AP, Constantinides MG, Bertozzi-Villa C, Singer JD, Bendelac A,  (2012) &quot;BTB-ZF factors recruit the E3 ligase cullin 3 to regulate lymphoid effector programs.&quot; <i>Nature</i> <b>491</b>(7425):618&ndash;21; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23086144 23086144]; doi: [https://dx.doi.org/10.1038/nature11548 10.1038/nature11548]; GPMDB: [http://gpmdb.org/data/keyword/23086144 8].
#Butter F, Bucerius F, Michel M, Cicova Z, Mann M, Janzen CJ,  (2013) &quot;Comparative proteomics of two life cycle stages of stable isotope-labeled Trypanosoma brucei reveals novel components of the parasite's host adaptation machinery.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(1):172&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23090971 23090971]; doi: [https://dx.doi.org/10.1074/mcp.M112.019224 10.1074/mcp.M112.019224]; GPMDB: [http://gpmdb.org/data/keyword/23090971 94].
#Butter F, Bucerius F, Michel M, Cicova Z, Mann M, Janzen CJ,  (2013) &quot;Comparative proteomics of two life cycle stages of stable isotope-labeled Trypanosoma brucei reveals novel components of the parasite's host adaptation machinery.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(1):172&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23090971 23090971]; doi: [https://dx.doi.org/10.1074/mcp.M112.019224 10.1074/mcp.M112.019224]; GPMDB: [http://gpmdb.org/data/keyword/23090971 94].
-
#Marguerat S, Schmidt A, Codlin S, Chen W, Aebersold R, Bähler J,  (2012) &quot;Quantitative analysis of fission yeast transcriptomes and proteomes in proliferating and quiescent cells.&quot; <i>Cell</i> <b>151</b>(3):671&ndash;83; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23101633 23101633]; doi: [https://dx.doi.org/10.1016/j.cell.2012.09.019 10.1016/j.cell.2012.09.019]; GPMDB: [http://gpmdb.org/data/keyword/23101633 33].
+
#Marguerat S, Schmidt A, Codlin S, Chen W, Aebersold R, Bähler J,  (2012) &quot;Quantitative analysis of fission yeast transcriptomes and proteomes in proliferating and quiescent cells.&quot; <i>Cell</i> <b>151</b>(3):671&ndash;83; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23101633 23101633]; doi: [https://dx.doi.org/10.1016/j.cell.2012.09.019 10.1016/j.cell.2012.09.019]; GPMDB: [http://gpmdb.org/data/keyword/23101633 33].
-
#Pointner J, Persson J, Prasad P, Norman-Axelsson U, Strålfors A, Khorosjutina O, Krietenstein N, Svensson JP, Ekwall K, Korber P,  (2012) &quot;CHD1 remodelers regulate nucleosome spacing in vitro and align nucleosomal arrays over gene coding regions in S. pombe.&quot; <i>EMBO J</i> <b>31</b>(23):4388&ndash;403; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23103765 23103765]; doi: [https://dx.doi.org/10.1038/emboj.2012.289 10.1038/emboj.2012.289]; GPMDB: [http://gpmdb.org/data/keyword/23103765 30].
+
#Pointner J, Persson J, Prasad P, Norman-Axelsson U, StrÃ¥lfors A, Khorosjutina O, Krietenstein N, Svensson JP, Ekwall K, Korber P,  (2012) &quot;CHD1 remodelers regulate nucleosome spacing in vitro and align nucleosomal arrays over gene coding regions in S. pombe.&quot; <i>EMBO J</i> <b>31</b>(23):4388&ndash;403; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23103765 23103765]; doi: [https://dx.doi.org/10.1038/emboj.2012.289 10.1038/emboj.2012.289]; GPMDB: [http://gpmdb.org/data/keyword/23103765 30].
#Oliveira AP, Ludwig C, Picotti P, Kogadeeva M, Aebersold R, Sauer U,  (2012) &quot;Regulation of yeast central metabolism by enzyme phosphorylation.&quot; <i>Mol Syst Biol</i> <b>8</b>:623; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23149688 23149688]; doi: [https://dx.doi.org/10.1038/msb.2012.55 10.1038/msb.2012.55]; GPMDB: [http://gpmdb.org/data/keyword/23149688 26].
#Oliveira AP, Ludwig C, Picotti P, Kogadeeva M, Aebersold R, Sauer U,  (2012) &quot;Regulation of yeast central metabolism by enzyme phosphorylation.&quot; <i>Mol Syst Biol</i> <b>8</b>:623; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23149688 23149688]; doi: [https://dx.doi.org/10.1038/msb.2012.55 10.1038/msb.2012.55]; GPMDB: [http://gpmdb.org/data/keyword/23149688 26].
#Muraoka S, Kume H, Adachi J, Shiromizu T, Watanabe S, Masuda T, Ishihama Y, Tomonaga T,  (2013) &quot;In-depth membrane proteomic study of breast cancer tissues for the generation of a chromosome-based protein list.&quot; <i>J Proteome Res</i> <b>12</b>(1):208&ndash;13; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23153008 23153008]; doi: [https://dx.doi.org/10.1021/pr300824m 10.1021/pr300824m]; GPMDB: [http://gpmdb.org/data/keyword/23153008 36].
#Muraoka S, Kume H, Adachi J, Shiromizu T, Watanabe S, Masuda T, Ishihama Y, Tomonaga T,  (2013) &quot;In-depth membrane proteomic study of breast cancer tissues for the generation of a chromosome-based protein list.&quot; <i>J Proteome Res</i> <b>12</b>(1):208&ndash;13; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23153008 23153008]; doi: [https://dx.doi.org/10.1021/pr300824m 10.1021/pr300824m]; GPMDB: [http://gpmdb.org/data/keyword/23153008 36].
#Fonslow BR, Stein BD, Webb KJ, Xu T, Choi J, Park SK, Yates JR 3rd,  (2013) &quot;Digestion and depletion of abundant proteins improves proteomic coverage.&quot; <i>Nat Methods</i> <b>10</b>(1):54&ndash;6; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23160281 23160281]; doi: [https://dx.doi.org/10.1038/nmeth.2250 10.1038/nmeth.2250]; GPMDB: [http://gpmdb.org/data/keyword/23160281 132].
#Fonslow BR, Stein BD, Webb KJ, Xu T, Choi J, Park SK, Yates JR 3rd,  (2013) &quot;Digestion and depletion of abundant proteins improves proteomic coverage.&quot; <i>Nat Methods</i> <b>10</b>(1):54&ndash;6; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23160281 23160281]; doi: [https://dx.doi.org/10.1038/nmeth.2250 10.1038/nmeth.2250]; GPMDB: [http://gpmdb.org/data/keyword/23160281 132].
-
#Kliemt S, Lange C, Otto W, Hintze V, Möller S, von Bergen M, Hempel U, Kalkhof S,  (2013) &quot;Sulfated hyaluronan containing collagen matrices enhance cell-matrix-interaction, endocytosis, and osteogenic differentiation of human mesenchymal stromal cells.&quot; <i>J Proteome Res</i> <b>12</b>(1):378&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23170904 23170904]; doi: [https://dx.doi.org/10.1021/pr300640h 10.1021/pr300640h]; GPMDB: [http://gpmdb.org/data/keyword/23170904 30].
+
#Kliemt S, Lange C, Otto W, Hintze V, Möller S, von Bergen M, Hempel U, Kalkhof S,  (2013) &quot;Sulfated hyaluronan containing collagen matrices enhance cell-matrix-interaction, endocytosis, and osteogenic differentiation of human mesenchymal stromal cells.&quot; <i>J Proteome Res</i> <b>12</b>(1):378&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23170904 23170904]; doi: [https://dx.doi.org/10.1021/pr300640h 10.1021/pr300640h]; GPMDB: [http://gpmdb.org/data/keyword/23170904 30].
-
#Hoehenwarter W, Thomas M, Nukarinen E, Egelhofer V, Röhrig H, Weckwerth W, Conrath U, Beckers GJ,  (2013) &quot;Identification of novel in vivo MAP kinase substrates in Arabidopsis thaliana through use of tandem metal oxide affinity chromatography.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(2):369&ndash;80; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23172892 23172892]; doi: [https://dx.doi.org/10.1074/mcp.M112.020560 10.1074/mcp.M112.020560]; GPMDB: [http://gpmdb.org/data/keyword/23172892 6].
+
#Hoehenwarter W, Thomas M, Nukarinen E, Egelhofer V, Röhrig H, Weckwerth W, Conrath U, Beckers GJ,  (2013) &quot;Identification of novel in vivo MAP kinase substrates in Arabidopsis thaliana through use of tandem metal oxide affinity chromatography.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(2):369&ndash;80; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23172892 23172892]; doi: [https://dx.doi.org/10.1074/mcp.M112.020560 10.1074/mcp.M112.020560]; GPMDB: [http://gpmdb.org/data/keyword/23172892 6].
#Yamana R, Iwasaki M, Wakabayashi M, Nakagawa M, Yamanaka S, Ishihama Y,  (2013) &quot;Rapid and deep profiling of human induced pluripotent stem cell proteome by one-shot NanoLC-MS/MS analysis with meter-scale monolithic silica columns.&quot; <i>J Proteome Res</i> <b>12</b>(1):214&ndash;21; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23210603 23210603]; doi: [https://dx.doi.org/10.1021/pr300837u 10.1021/pr300837u]; GPMDB: [http://gpmdb.org/data/keyword/23210603 129].
#Yamana R, Iwasaki M, Wakabayashi M, Nakagawa M, Yamanaka S, Ishihama Y,  (2013) &quot;Rapid and deep profiling of human induced pluripotent stem cell proteome by one-shot NanoLC-MS/MS analysis with meter-scale monolithic silica columns.&quot; <i>J Proteome Res</i> <b>12</b>(1):214&ndash;21; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23210603 23210603]; doi: [https://dx.doi.org/10.1021/pr300837u 10.1021/pr300837u]; GPMDB: [http://gpmdb.org/data/keyword/23210603 129].
#Meding S, Martin K, Gustafsson OJ, Eddes JS, Hack S, Oehler MK, Hoffmann P,  (2013) &quot;Tryptic peptide reference data sets for MALDI imaging mass spectrometry on formalin-fixed ovarian cancer tissues.&quot; <i>J Proteome Res</i> <b>12</b>(1):308&ndash;15; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23214983 23214983]; doi: [https://dx.doi.org/10.1021/pr300996x 10.1021/pr300996x]; GPMDB: [http://gpmdb.org/data/keyword/23214983 31].
#Meding S, Martin K, Gustafsson OJ, Eddes JS, Hack S, Oehler MK, Hoffmann P,  (2013) &quot;Tryptic peptide reference data sets for MALDI imaging mass spectrometry on formalin-fixed ovarian cancer tissues.&quot; <i>J Proteome Res</i> <b>12</b>(1):308&ndash;15; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23214983 23214983]; doi: [https://dx.doi.org/10.1021/pr300996x 10.1021/pr300996x]; GPMDB: [http://gpmdb.org/data/keyword/23214983 31].
#Tauro BJ, Greening DW, Mathias RA, Mathivanan S, Ji H, Simpson RJ,  (2013) &quot;Two distinct populations of exosomes are released from LIM1863 colon carcinoma cell-derived organoids.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(3):587&ndash;98; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23230278 23230278]; doi: [https://dx.doi.org/10.1074/mcp.M112.021303 10.1074/mcp.M112.021303]; GPMDB: [http://gpmdb.org/data/keyword/23230278 20].
#Tauro BJ, Greening DW, Mathias RA, Mathivanan S, Ji H, Simpson RJ,  (2013) &quot;Two distinct populations of exosomes are released from LIM1863 colon carcinoma cell-derived organoids.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(3):587&ndash;98; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23230278 23230278]; doi: [https://dx.doi.org/10.1074/mcp.M112.021303 10.1074/mcp.M112.021303]; GPMDB: [http://gpmdb.org/data/keyword/23230278 20].
-
#Segura V, Medina-Aunon JA, Guruceaga E, Gharbi SI, González-Tejedo C, Sánchez del Pino MM, Canals F, Fuentes M, Casal JI, Martínez-Bartolomé S, Elortza F, Mato JM, Arizmendi JM, Abian J, Oliveira E, Gil C, Vivanco F, Blanco F, Albar JP, Corrales FJ,  (2013) &quot;Spanish human proteome project: dissection of chromosome 16.&quot; <i>J Proteome Res</i> <b>12</b>(1):112&ndash;22; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23234512 23234512]; doi: [https://dx.doi.org/10.1021/pr300898u 10.1021/pr300898u]; GPMDB: [http://gpmdb.org/data/keyword/23234512 43].
+
#Segura V, Medina-Aunon JA, Guruceaga E, Gharbi SI, González-Tejedo C, Sánchez del Pino MM, Canals F, Fuentes M, Casal JI, Martínez-Bartolomé S, Elortza F, Mato JM, Arizmendi JM, Abian J, Oliveira E, Gil C, Vivanco F, Blanco F, Albar JP, Corrales FJ,  (2013) &quot;Spanish human proteome project: dissection of chromosome 16.&quot; <i>J Proteome Res</i> <b>12</b>(1):112&ndash;22; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23234512 23234512]; doi: [https://dx.doi.org/10.1021/pr300898u 10.1021/pr300898u]; GPMDB: [http://gpmdb.org/data/keyword/23234512 43].
#Farcas AM, Blackledge NP, Sudbery I, Long HK, McGouran JF, Rose NR, Lee S, Sims D, Cerase A, Sheahan TW, Koseki H, Brockdorff N, Ponting CP, Kessler BM, Klose RJ,  (2012) &quot;KDM2B links the Polycomb Repressive Complex 1 (PRC1) to recognition of CpG islands.&quot; <i>Elife</i> <b>1</b>:e00205; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23256043 23256043]; doi: [https://dx.doi.org/10.7554/eLife.00205 10.7554/eLife.00205]; GPMDB: [http://gpmdb.org/data/keyword/23256043 5].
#Farcas AM, Blackledge NP, Sudbery I, Long HK, McGouran JF, Rose NR, Lee S, Sims D, Cerase A, Sheahan TW, Koseki H, Brockdorff N, Ponting CP, Kessler BM, Klose RJ,  (2012) &quot;KDM2B links the Polycomb Repressive Complex 1 (PRC1) to recognition of CpG islands.&quot; <i>Elife</i> <b>1</b>:e00205; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23256043 23256043]; doi: [https://dx.doi.org/10.7554/eLife.00205 10.7554/eLife.00205]; GPMDB: [http://gpmdb.org/data/keyword/23256043 5].
-
#Udeshi ND, Svinkina T, Mertins P, Kuhn E, Mani DR, Qiao JW, Carr SA,  (2013) &quot;Refined preparation and use of anti-diglycine remnant (K-ε-GG) antibody enables routine quantification of 10,000s of ubiquitination sites in single proteomics experiments.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(3):825&ndash;31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23266961 23266961]; doi: [https://dx.doi.org/10.1074/mcp.O112.027094 10.1074/mcp.O112.027094]; GPMDB: [http://gpmdb.org/data/keyword/23266961 72].
+
#Udeshi ND, Svinkina T, Mertins P, Kuhn E, Mani DR, Qiao JW, Carr SA,  (2013) &quot;Refined preparation and use of anti-diglycine remnant (K-ε-GG) antibody enables routine quantification of 10,000s of ubiquitination sites in single proteomics experiments.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(3):825&ndash;31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23266961 23266961]; doi: [https://dx.doi.org/10.1074/mcp.O112.027094 10.1074/mcp.O112.027094]; GPMDB: [http://gpmdb.org/data/keyword/23266961 72].
#Maccarrone G, Rewerts C, Lebar M, Turck CW, Martins-de-Souza D,  (2013) &quot;Proteome profiling of peripheral mononuclear cells from human blood.&quot; <i>Proteomics</i> <b>13</b>(5):893&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23281267 23281267]; doi: [https://dx.doi.org/10.1002/pmic.201200377 10.1002/pmic.201200377]; GPMDB: [http://gpmdb.org/data/keyword/23281267 3].
#Maccarrone G, Rewerts C, Lebar M, Turck CW, Martins-de-Souza D,  (2013) &quot;Proteome profiling of peripheral mononuclear cells from human blood.&quot; <i>Proteomics</i> <b>13</b>(5):893&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23281267 23281267]; doi: [https://dx.doi.org/10.1002/pmic.201200377 10.1002/pmic.201200377]; GPMDB: [http://gpmdb.org/data/keyword/23281267 3].
#Kentsis A, Shulman A, Ahmed S, Brennan E, Monuteaux MC, Lee YH, Lipsett S, Paulo JA, Dedeoglu F, Fuhlbrigge R, Bachur R, Bradwin G, Arditi M, Sundel RP, Newburger JW, Steen H, Kim S,  (2013) &quot;Urine proteomics for discovery of improved diagnostic markers of Kawasaki disease.&quot; <i>EMBO Mol Med</i> <b>5</b>(2):210&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23281308 23281308]; doi: [https://dx.doi.org/10.1002/emmm.201201494 10.1002/emmm.201201494]; GPMDB: [http://gpmdb.org/data/keyword/23281308 145].
#Kentsis A, Shulman A, Ahmed S, Brennan E, Monuteaux MC, Lee YH, Lipsett S, Paulo JA, Dedeoglu F, Fuhlbrigge R, Bachur R, Bradwin G, Arditi M, Sundel RP, Newburger JW, Steen H, Kim S,  (2013) &quot;Urine proteomics for discovery of improved diagnostic markers of Kawasaki disease.&quot; <i>EMBO Mol Med</i> <b>5</b>(2):210&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23281308 23281308]; doi: [https://dx.doi.org/10.1002/emmm.201201494 10.1002/emmm.201201494]; GPMDB: [http://gpmdb.org/data/keyword/23281308 145].
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#Zhang H, Zhou H, Berke L, Heck AJ, Mohammed S, Scheres B, Menke FL,  (2013) &quot;Quantitative phosphoproteomics after auxin-stimulated lateral root induction identifies an SNX1 protein phosphorylation site required for growth.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(5):1158&ndash;69; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23328941 23328941]; doi: [https://dx.doi.org/10.1074/mcp.M112.021220 10.1074/mcp.M112.021220]; GPMDB: [http://gpmdb.org/data/keyword/23328941 11].
#Zhang H, Zhou H, Berke L, Heck AJ, Mohammed S, Scheres B, Menke FL,  (2013) &quot;Quantitative phosphoproteomics after auxin-stimulated lateral root induction identifies an SNX1 protein phosphorylation site required for growth.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(5):1158&ndash;69; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23328941 23328941]; doi: [https://dx.doi.org/10.1074/mcp.M112.021220 10.1074/mcp.M112.021220]; GPMDB: [http://gpmdb.org/data/keyword/23328941 11].
#Wang F, Blanchard AP, Elisma F, Granger M, Xu H, Bennett SA, Figeys D, Zou H,  (2013) &quot;Phosphoproteome analysis of an early onset mouse model (TgCRND8) of Alzheimer's disease reveals temporal changes in neuronal and glia signaling pathways.&quot; <i>Proteomics</i> <b>13</b>(8):1292&ndash;305; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23335269 23335269]; doi: [https://dx.doi.org/10.1002/pmic.201200415 10.1002/pmic.201200415]; GPMDB: [http://gpmdb.org/data/keyword/23335269 63].
#Wang F, Blanchard AP, Elisma F, Granger M, Xu H, Bennett SA, Figeys D, Zou H,  (2013) &quot;Phosphoproteome analysis of an early onset mouse model (TgCRND8) of Alzheimer's disease reveals temporal changes in neuronal and glia signaling pathways.&quot; <i>Proteomics</i> <b>13</b>(8):1292&ndash;305; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23335269 23335269]; doi: [https://dx.doi.org/10.1002/pmic.201200415 10.1002/pmic.201200415]; GPMDB: [http://gpmdb.org/data/keyword/23335269 63].
-
#Albrethsen J, Agner J, Piersma SR, Højrup P, Pham TV, Weldingh K, Jimenez CR, Andersen P, Rosenkrands I,  (2013) &quot;Proteomic profiling of Mycobacterium tuberculosis identifies nutrient-starvation-responsive toxin-antitoxin systems.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(5):1180&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23345537 23345537]; doi: [https://dx.doi.org/10.1074/mcp.M112.018846 10.1074/mcp.M112.018846]; GPMDB: [http://gpmdb.org/data/keyword/23345537 59].
+
#Albrethsen J, Agner J, Piersma SR, Højrup P, Pham TV, Weldingh K, Jimenez CR, Andersen P, Rosenkrands I,  (2013) &quot;Proteomic profiling of Mycobacterium tuberculosis identifies nutrient-starvation-responsive toxin-antitoxin systems.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(5):1180&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23345537 23345537]; doi: [https://dx.doi.org/10.1074/mcp.M112.018846 10.1074/mcp.M112.018846]; GPMDB: [http://gpmdb.org/data/keyword/23345537 59].
-
#Haußmann U, Wolters DA, Fränzel B, Eltis LD, Poetsch A,  (2013) &quot;Physiological adaptation of the Rhodococcus jostii RHA1 membrane proteome to steroids as growth substrates.&quot; <i>J Proteome Res</i> <b>12</b>(3):1188&ndash;98; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23360181 23360181]; doi: [https://dx.doi.org/10.1021/pr300816n 10.1021/pr300816n]; GPMDB: [http://gpmdb.org/data/keyword/23360181 220].
+
#Haußmann U, Wolters DA, Fränzel B, Eltis LD, Poetsch A,  (2013) &quot;Physiological adaptation of the Rhodococcus jostii RHA1 membrane proteome to steroids as growth substrates.&quot; <i>J Proteome Res</i> <b>12</b>(3):1188&ndash;98; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23360181 23360181]; doi: [https://dx.doi.org/10.1021/pr300816n 10.1021/pr300816n]; GPMDB: [http://gpmdb.org/data/keyword/23360181 220].
#Lee HJ, Jeong SK, Na K, Lee MJ, Lee SH, Lim JS, Cha HJ, Cho JY, Kwon JY, Kim H, Song SY, Yoo JS, Park YM, Kim H, Hancock WS, Paik YK,  (2013) &quot;Comprehensive genome-wide proteomic analysis of human placental tissue for the Chromosome-Centric Human Proteome Project.&quot; <i>J Proteome Res</i> <b>12</b>(6):2458&ndash;66; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23362793 23362793]; doi: [https://dx.doi.org/10.1021/pr301040g 10.1021/pr301040g]; GPMDB: [http://gpmdb.org/data/keyword/23362793 47].
#Lee HJ, Jeong SK, Na K, Lee MJ, Lee SH, Lim JS, Cha HJ, Cho JY, Kwon JY, Kim H, Song SY, Yoo JS, Park YM, Kim H, Hancock WS, Paik YK,  (2013) &quot;Comprehensive genome-wide proteomic analysis of human placental tissue for the Chromosome-Centric Human Proteome Project.&quot; <i>J Proteome Res</i> <b>12</b>(6):2458&ndash;66; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23362793 23362793]; doi: [https://dx.doi.org/10.1021/pr301040g 10.1021/pr301040g]; GPMDB: [http://gpmdb.org/data/keyword/23362793 47].
#Rhee HW, Zou P, Udeshi ND, Martell JD, Mootha VK, Carr SA, Ting AY,  (2013) &quot;Proteomic mapping of mitochondria in living cells via spatially restricted enzymatic tagging.&quot; <i>Science</i> <b>339</b>(6125):1328&ndash;31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23371551 23371551]; doi: [https://dx.doi.org/10.1126/science.1230593 10.1126/science.1230593]; GPMDB: [http://gpmdb.org/data/keyword/23371551 64].
#Rhee HW, Zou P, Udeshi ND, Martell JD, Mootha VK, Carr SA, Ting AY,  (2013) &quot;Proteomic mapping of mitochondria in living cells via spatially restricted enzymatic tagging.&quot; <i>Science</i> <b>339</b>(6125):1328&ndash;31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23371551 23371551]; doi: [https://dx.doi.org/10.1126/science.1230593 10.1126/science.1230593]; GPMDB: [http://gpmdb.org/data/keyword/23371551 64].
-
#Zanivan S, Meves A, Behrendt K, Schoof EM, Neilson LJ, Cox J, Tang HR, Kalna G, van Ree JH, van Deursen JM, Trempus CS, Machesky LM, Linding R, Wickström SA, Fässler R, Mann M,  (2013) &quot;In vivo SILAC-based proteomics reveals phosphoproteome changes during mouse skin carcinogenesis.&quot; <i>Cell Rep</i> <b>3</b>(2):552&ndash;66; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23375375 23375375]; doi: [https://dx.doi.org/10.1016/j.celrep.2013.01.003 10.1016/j.celrep.2013.01.003]; GPMDB: [http://gpmdb.org/data/keyword/23375375 315].
+
#Zanivan S, Meves A, Behrendt K, Schoof EM, Neilson LJ, Cox J, Tang HR, Kalna G, van Ree JH, van Deursen JM, Trempus CS, Machesky LM, Linding R, Wickström SA, Fässler R, Mann M,  (2013) &quot;In vivo SILAC-based proteomics reveals phosphoproteome changes during mouse skin carcinogenesis.&quot; <i>Cell Rep</i> <b>3</b>(2):552&ndash;66; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23375375 23375375]; doi: [https://dx.doi.org/10.1016/j.celrep.2013.01.003 10.1016/j.celrep.2013.01.003]; GPMDB: [http://gpmdb.org/data/keyword/23375375 315].
#Ekkebus R, van Kasteren SI, Kulathu Y, Scholten A, Berlin I, Geurink PP, de Jong A, Goerdayal S, Neefjes J, Heck AJ, Komander D, Ovaa H,  (2013) &quot;On terminal alkynes that can react with active-site cysteine nucleophiles in proteases.&quot; <i>J Am Chem Soc</i> <b>135</b>(8):2867&ndash;70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23387960 23387960]; doi: [https://dx.doi.org/10.1021/ja309802n 10.1021/ja309802n]; GPMDB: [http://gpmdb.org/data/keyword/23387960 1].
#Ekkebus R, van Kasteren SI, Kulathu Y, Scholten A, Berlin I, Geurink PP, de Jong A, Goerdayal S, Neefjes J, Heck AJ, Komander D, Ovaa H,  (2013) &quot;On terminal alkynes that can react with active-site cysteine nucleophiles in proteases.&quot; <i>J Am Chem Soc</i> <b>135</b>(8):2867&ndash;70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23387960 23387960]; doi: [https://dx.doi.org/10.1021/ja309802n 10.1021/ja309802n]; GPMDB: [http://gpmdb.org/data/keyword/23387960 1].
-
#Cho CK, Drabovich AP, Karagiannis GS, Martínez-Morillo E, Dason S, Dimitromanolakis A, Diamandis EP,  (2013) &quot;Quantitative proteomic analysis of amniocytes reveals potentially dysregulated molecular networks in Down syndrome.&quot; <i>Clin Proteomics</i> <b>10</b>(1):2; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23394617 23394617]; doi: [https://dx.doi.org/10.1186/1559-0275-10-2 10.1186/1559-0275-10-2]; GPMDB: [http://gpmdb.org/data/keyword/23394617 30].
+
#Cho CK, Drabovich AP, Karagiannis GS, Martínez-Morillo E, Dason S, Dimitromanolakis A, Diamandis EP,  (2013) &quot;Quantitative proteomic analysis of amniocytes reveals potentially dysregulated molecular networks in Down syndrome.&quot; <i>Clin Proteomics</i> <b>10</b>(1):2; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23394617 23394617]; doi: [https://dx.doi.org/10.1186/1559-0275-10-2 10.1186/1559-0275-10-2]; GPMDB: [http://gpmdb.org/data/keyword/23394617 30].
#de Graaf EL, Vermeij WP, de Waard MC, Rijksen Y, van der Pluijm I, Hoogenraad CC, Hoeijmakers JH, Altelaar AF, Heck AJ,  (2013) &quot;Spatio-temporal analysis of molecular determinants of neuronal degeneration in the aging mouse cerebellum.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(5):1350&ndash;62; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23399551 23399551]; doi: [https://dx.doi.org/10.1074/mcp.M112.024950 10.1074/mcp.M112.024950]; GPMDB: [http://gpmdb.org/data/keyword/23399551 120].
#de Graaf EL, Vermeij WP, de Waard MC, Rijksen Y, van der Pluijm I, Hoogenraad CC, Hoeijmakers JH, Altelaar AF, Heck AJ,  (2013) &quot;Spatio-temporal analysis of molecular determinants of neuronal degeneration in the aging mouse cerebellum.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(5):1350&ndash;62; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23399551 23399551]; doi: [https://dx.doi.org/10.1074/mcp.M112.024950 10.1074/mcp.M112.024950]; GPMDB: [http://gpmdb.org/data/keyword/23399551 120].
#Mohammed H, D'Santos C, Serandour AA, Ali HR, Brown GD, Atkins A, Rueda OM, Holmes KA, Theodorou V, Robinson JL, Zwart W, Saadi A, Ross-Innes CS, Chin SF, Menon S, Stingl J, Palmieri C, Caldas C, Carroll JS,  (2013) &quot;Endogenous purification reveals GREB1 as a key estrogen receptor regulatory factor.&quot; <i>Cell Rep</i> <b>3</b>(2):342&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23403292 23403292]; doi: [https://dx.doi.org/10.1016/j.celrep.2013.01.010 10.1016/j.celrep.2013.01.010]; GPMDB: [http://gpmdb.org/data/keyword/23403292 9].
#Mohammed H, D'Santos C, Serandour AA, Ali HR, Brown GD, Atkins A, Rueda OM, Holmes KA, Theodorou V, Robinson JL, Zwart W, Saadi A, Ross-Innes CS, Chin SF, Menon S, Stingl J, Palmieri C, Caldas C, Carroll JS,  (2013) &quot;Endogenous purification reveals GREB1 as a key estrogen receptor regulatory factor.&quot; <i>Cell Rep</i> <b>3</b>(2):342&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23403292 23403292]; doi: [https://dx.doi.org/10.1016/j.celrep.2013.01.010 10.1016/j.celrep.2013.01.010]; GPMDB: [http://gpmdb.org/data/keyword/23403292 9].
#Sun B, Ma L, Yan X, Lee D, Alexander V, Hohmann LJ, Lorang C, Chandrasena L, Tian Q, Hood L,  (2013) &quot;N-glycoproteome of E14.Tg2a mouse embryonic stem cells.&quot; <i>PLoS One</i> <b>8</b>(2):e55722; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23405203 23405203]; doi: [https://dx.doi.org/10.1371/journal.pone.0055722 10.1371/journal.pone.0055722]; GPMDB: [http://gpmdb.org/data/keyword/23405203 40].
#Sun B, Ma L, Yan X, Lee D, Alexander V, Hohmann LJ, Lorang C, Chandrasena L, Tian Q, Hood L,  (2013) &quot;N-glycoproteome of E14.Tg2a mouse embryonic stem cells.&quot; <i>PLoS One</i> <b>8</b>(2):e55722; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23405203 23405203]; doi: [https://dx.doi.org/10.1371/journal.pone.0055722 10.1371/journal.pone.0055722]; GPMDB: [http://gpmdb.org/data/keyword/23405203 40].
-
#Colinet H, Overgaard J, Com E, Sørensen JG,  (2013) &quot;Proteomic profiling of thermal acclimation in Drosophila melanogaster.&quot; <i>Insect Biochem Mol Biol</i> <b>43</b>(4):352&ndash;65; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23416132 23416132]; doi: [https://dx.doi.org/10.1016/j.ibmb.2013.01.006 10.1016/j.ibmb.2013.01.006]; GPMDB: [http://gpmdb.org/data/keyword/23416132 50].
+
#Colinet H, Overgaard J, Com E, Sørensen JG,  (2013) &quot;Proteomic profiling of thermal acclimation in Drosophila melanogaster.&quot; <i>Insect Biochem Mol Biol</i> <b>43</b>(4):352&ndash;65; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23416132 23416132]; doi: [https://dx.doi.org/10.1016/j.ibmb.2013.01.006 10.1016/j.ibmb.2013.01.006]; GPMDB: [http://gpmdb.org/data/keyword/23416132 50].
-
#Spruijt CG, Gnerlich F, Smits AH, Pfaffeneder T, Jansen PW, Bauer C, Münzel M, Wagner M, Müller M, Khan F, Eberl HC, Mensinga A, Brinkman AB, Lephikov K, Müller U, Walter J, Boelens R, van Ingen H, Leonhardt H, Carell T, Vermeulen M,  (2013) &quot;Dynamic readers for 5-(hydroxy)methylcytosine and its oxidized derivatives.&quot; <i>Cell</i> <b>152</b>(5):1146&ndash;59; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23434322 23434322]; doi: [https://dx.doi.org/10.1016/j.cell.2013.02.004 10.1016/j.cell.2013.02.004]; GPMDB: [http://gpmdb.org/data/keyword/23434322 249].
+
#Spruijt CG, Gnerlich F, Smits AH, Pfaffeneder T, Jansen PW, Bauer C, Münzel M, Wagner M, Müller M, Khan F, Eberl HC, Mensinga A, Brinkman AB, Lephikov K, Müller U, Walter J, Boelens R, van Ingen H, Leonhardt H, Carell T, Vermeulen M,  (2013) &quot;Dynamic readers for 5-(hydroxy)methylcytosine and its oxidized derivatives.&quot; <i>Cell</i> <b>152</b>(5):1146&ndash;59; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23434322 23434322]; doi: [https://dx.doi.org/10.1016/j.cell.2013.02.004 10.1016/j.cell.2013.02.004]; GPMDB: [http://gpmdb.org/data/keyword/23434322 249].
-
#Chapel A, Kieffer-Jaquinod S, Sagné C, Verdon Q, Ivaldi C, Mellal M, Thirion J, Jadot M, Bruley C, Garin J, Gasnier B, Journet A,  (2013) &quot;An extended proteome map of the lysosomal membrane reveals novel potential transporters.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(6):1572&ndash;88; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23436907 23436907]; doi: [https://dx.doi.org/10.1074/mcp.M112.021980 10.1074/mcp.M112.021980]; GPMDB: [http://gpmdb.org/data/keyword/23436907 1].
+
#Chapel A, Kieffer-Jaquinod S, Sagné C, Verdon Q, Ivaldi C, Mellal M, Thirion J, Jadot M, Bruley C, Garin J, Gasnier B, Journet A,  (2013) &quot;An extended proteome map of the lysosomal membrane reveals novel potential transporters.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(6):1572&ndash;88; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23436907 23436907]; doi: [https://dx.doi.org/10.1074/mcp.M112.021980 10.1074/mcp.M112.021980]; GPMDB: [http://gpmdb.org/data/keyword/23436907 1].
-
#Fabietti A, Gaspari M, Krishnan S, Quirino A, Liberto MC, Cuda G, Focà A,  (2013) &quot;Shotgun proteomic analysis of two Bartonella quintana strains.&quot; <i>Proteomics</i> <b>13</b>(8):1375&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23450663 23450663]; doi: [https://dx.doi.org/10.1002/pmic.201200165 10.1002/pmic.201200165]; GPMDB: [http://gpmdb.org/data/keyword/23450663 8].
+
#Fabietti A, Gaspari M, Krishnan S, Quirino A, Liberto MC, Cuda G, Focà A,  (2013) &quot;Shotgun proteomic analysis of two Bartonella quintana strains.&quot; <i>Proteomics</i> <b>13</b>(8):1375&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23450663 23450663]; doi: [https://dx.doi.org/10.1002/pmic.201200165 10.1002/pmic.201200165]; GPMDB: [http://gpmdb.org/data/keyword/23450663 8].
#Varjosalo M, Sacco R, Stukalov A, van Drogen A, Planyavsky M, Hauri S, Aebersold R, Bennett KL, Colinge J, Gstaiger M, Superti-Furga G,  (2013) &quot;Interlaboratory reproducibility of large-scale human protein-complex analysis by standardized AP-MS.&quot; <i>Nat Methods</i> <b>10</b>(4):307&ndash;14; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23455922 23455922]; doi: [https://dx.doi.org/10.1038/nmeth.2400 10.1038/nmeth.2400]; GPMDB: [http://gpmdb.org/data/keyword/23455922 288].
#Varjosalo M, Sacco R, Stukalov A, van Drogen A, Planyavsky M, Hauri S, Aebersold R, Bennett KL, Colinge J, Gstaiger M, Superti-Furga G,  (2013) &quot;Interlaboratory reproducibility of large-scale human protein-complex analysis by standardized AP-MS.&quot; <i>Nat Methods</i> <b>10</b>(4):307&ndash;14; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23455922 23455922]; doi: [https://dx.doi.org/10.1038/nmeth.2400 10.1038/nmeth.2400]; GPMDB: [http://gpmdb.org/data/keyword/23455922 288].
#Fanayan S, Smith JT, Lee LY, Yan F, Snyder M, Hancock WS, Nice E,  (2013) &quot;Proteogenomic analysis of human colon carcinoma cell lines LIM1215, LIM1899, and LIM2405.&quot; <i>J Proteome Res</i> <b>12</b>(4):1732&ndash;42; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23458625 23458625]; doi: [https://dx.doi.org/10.1021/pr3010869 10.1021/pr3010869]; GPMDB: [http://gpmdb.org/data/keyword/23458625 136].
#Fanayan S, Smith JT, Lee LY, Yan F, Snyder M, Hancock WS, Nice E,  (2013) &quot;Proteogenomic analysis of human colon carcinoma cell lines LIM1215, LIM1899, and LIM2405.&quot; <i>J Proteome Res</i> <b>12</b>(4):1732&ndash;42; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23458625 23458625]; doi: [https://dx.doi.org/10.1021/pr3010869 10.1021/pr3010869]; GPMDB: [http://gpmdb.org/data/keyword/23458625 136].
#Rao SA, Carolan JC, Wilkinson TL,  (2013) &quot;Proteomic profiling of cereal aphid saliva reveals both ubiquitous and adaptive secreted proteins.&quot; <i>PLoS One</i> <b>8</b>(2):e57413; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23460852 23460852]; doi: [https://dx.doi.org/10.1371/journal.pone.0057413 10.1371/journal.pone.0057413]; GPMDB: [http://gpmdb.org/data/keyword/23460852 16].
#Rao SA, Carolan JC, Wilkinson TL,  (2013) &quot;Proteomic profiling of cereal aphid saliva reveals both ubiquitous and adaptive secreted proteins.&quot; <i>PLoS One</i> <b>8</b>(2):e57413; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23460852 23460852]; doi: [https://dx.doi.org/10.1371/journal.pone.0057413 10.1371/journal.pone.0057413]; GPMDB: [http://gpmdb.org/data/keyword/23460852 16].
-
#Gunaratne J, Schmidt A, Quandt A, Neo SP, Saraç OS, Gracia T, Loguercio S, Ahrné E, Xia RL, Tan KH, Lössner C, Bähler J, Beyer A, Blackstock W, Aebersold R,  (2013) &quot;Extensive mass spectrometry-based analysis of the fission yeast proteome: the Schizosaccharomyces pombe PeptideAtlas.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(6):1741&ndash;51; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23462206 23462206]; doi: [https://dx.doi.org/10.1074/mcp.M112.023754 10.1074/mcp.M112.023754]; GPMDB: [http://gpmdb.org/data/keyword/23462206 384].
+
#Gunaratne J, Schmidt A, Quandt A, Neo SP, Saraç OS, Gracia T, Loguercio S, Ahrné E, Xia RL, Tan KH, Lössner C, Bähler J, Beyer A, Blackstock W, Aebersold R,  (2013) &quot;Extensive mass spectrometry-based analysis of the fission yeast proteome: the Schizosaccharomyces pombe PeptideAtlas.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(6):1741&ndash;51; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23462206 23462206]; doi: [https://dx.doi.org/10.1074/mcp.M112.023754 10.1074/mcp.M112.023754]; GPMDB: [http://gpmdb.org/data/keyword/23462206 384].
#Hassan C, Kester MG, de Ru AH, Hombrink P, Drijfhout JW, Nijveen H, Leunissen JA, Heemskerk MH, Falkenburg JH, van Veelen PA,  (2013) &quot;The human leukocyte antigen-presented ligandome of B lymphocytes.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(7):1829&ndash;43; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23481700 23481700]; doi: [https://dx.doi.org/10.1074/mcp.M112.024810 10.1074/mcp.M112.024810]; GPMDB: [http://gpmdb.org/data/keyword/23481700 191].
#Hassan C, Kester MG, de Ru AH, Hombrink P, Drijfhout JW, Nijveen H, Leunissen JA, Heemskerk MH, Falkenburg JH, van Veelen PA,  (2013) &quot;The human leukocyte antigen-presented ligandome of B lymphocytes.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(7):1829&ndash;43; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23481700 23481700]; doi: [https://dx.doi.org/10.1074/mcp.M112.024810 10.1074/mcp.M112.024810]; GPMDB: [http://gpmdb.org/data/keyword/23481700 191].
#Urbaniak MD, Martin DM, Ferguson MA,  (2013) &quot;Global quantitative SILAC phosphoproteomics reveals differential phosphorylation is widespread between the procyclic and bloodstream form lifecycle stages of Trypanosoma brucei.&quot; <i>J Proteome Res</i> <b>12</b>(5):2233&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23485197 23485197]; doi: [https://dx.doi.org/10.1021/pr400086y 10.1021/pr400086y]; GPMDB: [http://gpmdb.org/data/keyword/23485197 148].
#Urbaniak MD, Martin DM, Ferguson MA,  (2013) &quot;Global quantitative SILAC phosphoproteomics reveals differential phosphorylation is widespread between the procyclic and bloodstream form lifecycle stages of Trypanosoma brucei.&quot; <i>J Proteome Res</i> <b>12</b>(5):2233&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23485197 23485197]; doi: [https://dx.doi.org/10.1021/pr400086y 10.1021/pr400086y]; GPMDB: [http://gpmdb.org/data/keyword/23485197 148].
#van Nuland R, Smits AH, Pallaki P, Jansen PW, Vermeulen M, Timmers HT,  (2013) &quot;Quantitative dissection and stoichiometry determination of the human SET1/MLL histone methyltransferase complexes.&quot; <i>Mol Cell Biol</i> <b>33</b>(10):2067&ndash;77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23508102 23508102]; doi: [https://dx.doi.org/10.1128/MCB.01742-12 10.1128/MCB.01742-12]; GPMDB: [http://gpmdb.org/data/keyword/23508102 52].
#van Nuland R, Smits AH, Pallaki P, Jansen PW, Vermeulen M, Timmers HT,  (2013) &quot;Quantitative dissection and stoichiometry determination of the human SET1/MLL histone methyltransferase complexes.&quot; <i>Mol Cell Biol</i> <b>33</b>(10):2067&ndash;77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23508102 23508102]; doi: [https://dx.doi.org/10.1128/MCB.01742-12 10.1128/MCB.01742-12]; GPMDB: [http://gpmdb.org/data/keyword/23508102 52].
#Papachristou EK, Roumeliotis TI, Chrysagi A, Trigoni C, Charvalos E, Townsend PA, Pavlakis K, Garbis SD,  (2013) &quot;The shotgun proteomic study of the human ThinPrep cervical smear using iTRAQ mass-tagging and 2D LC-FT-Orbitrap-MS: the detection of the human papillomavirus at the protein level.&quot; <i>J Proteome Res</i> <b>12</b>(5):2078&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23510160 23510160]; doi: [https://dx.doi.org/10.1021/pr301067r 10.1021/pr301067r]; GPMDB: [http://gpmdb.org/data/keyword/23510160 3].
#Papachristou EK, Roumeliotis TI, Chrysagi A, Trigoni C, Charvalos E, Townsend PA, Pavlakis K, Garbis SD,  (2013) &quot;The shotgun proteomic study of the human ThinPrep cervical smear using iTRAQ mass-tagging and 2D LC-FT-Orbitrap-MS: the detection of the human papillomavirus at the protein level.&quot; <i>J Proteome Res</i> <b>12</b>(5):2078&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23510160 23510160]; doi: [https://dx.doi.org/10.1021/pr301067r 10.1021/pr301067r]; GPMDB: [http://gpmdb.org/data/keyword/23510160 3].
-
#Ori A, Banterle N, Iskar M, Andrés-Pons A, Escher C, Khanh Bui H, Sparks L, Solis-Mezarino V, Rinner O, Bork P, Lemke EA, Beck M,  (2013) &quot;Cell type-specific nuclear pores: a case in point for context-dependent stoichiometry of molecular machines.&quot; <i>Mol Syst Biol</i> <b>9</b>:648; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23511206 23511206]; doi: [https://dx.doi.org/10.1038/msb.2013.4 10.1038/msb.2013.4]; GPMDB: [http://gpmdb.org/data/keyword/23511206 30].
+
#Ori A, Banterle N, Iskar M, Andrés-Pons A, Escher C, Khanh Bui H, Sparks L, Solis-Mezarino V, Rinner O, Bork P, Lemke EA, Beck M,  (2013) &quot;Cell type-specific nuclear pores: a case in point for context-dependent stoichiometry of molecular machines.&quot; <i>Mol Syst Biol</i> <b>9</b>:648; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23511206 23511206]; doi: [https://dx.doi.org/10.1038/msb.2013.4 10.1038/msb.2013.4]; GPMDB: [http://gpmdb.org/data/keyword/23511206 30].
-
#Bendz M, Skwark M, Nilsson D, Granholm V, Cristobal S, Käll L, Elofsson A,  (2013) &quot;Membrane protein shaving with thermolysin can be used to evaluate topology predictors.&quot; <i>Proteomics</i> <b>13</b>(9):1467&ndash;80; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23512833 23512833]; doi: [https://dx.doi.org/10.1002/pmic.201200517 10.1002/pmic.201200517]; GPMDB: [http://gpmdb.org/data/keyword/23512833 8].
+
#Bendz M, Skwark M, Nilsson D, Granholm V, Cristobal S, Käll L, Elofsson A,  (2013) &quot;Membrane protein shaving with thermolysin can be used to evaluate topology predictors.&quot; <i>Proteomics</i> <b>13</b>(9):1467&ndash;80; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23512833 23512833]; doi: [https://dx.doi.org/10.1002/pmic.201200517 10.1002/pmic.201200517]; GPMDB: [http://gpmdb.org/data/keyword/23512833 8].
#Cramer GR, Van Sluyter SC, Hopper DW, Pascovici D, Keighley T, Haynes PA,  (2013) &quot;Proteomic analysis indicates massive changes in metabolism prior to the inhibition of growth and photosynthesis of grapevine (Vitis vinifera L.) in response to water deficit.&quot; <i>BMC Plant Biol</i> <b>13</b>:49; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23514573 23514573]; doi: [https://dx.doi.org/10.1186/1471-2229-13-49 10.1186/1471-2229-13-49]; GPMDB: [http://gpmdb.org/data/keyword/23514573 96].
#Cramer GR, Van Sluyter SC, Hopper DW, Pascovici D, Keighley T, Haynes PA,  (2013) &quot;Proteomic analysis indicates massive changes in metabolism prior to the inhibition of growth and photosynthesis of grapevine (Vitis vinifera L.) in response to water deficit.&quot; <i>BMC Plant Biol</i> <b>13</b>:49; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23514573 23514573]; doi: [https://dx.doi.org/10.1186/1471-2229-13-49 10.1186/1471-2229-13-49]; GPMDB: [http://gpmdb.org/data/keyword/23514573 96].
#Bradshaw E, Saalbach G, McArthur M,  (2013) &quot;Proteomic survey of the Streptomyces coelicolor nucleoid.&quot; <i>J Proteomics</i> <b>83</b>:37&ndash;46; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23523638 23523638]; doi: [https://dx.doi.org/10.1016/j.jprot.2013.02.033 10.1016/j.jprot.2013.02.033]; GPMDB: [http://gpmdb.org/data/keyword/23523638 6].
#Bradshaw E, Saalbach G, McArthur M,  (2013) &quot;Proteomic survey of the Streptomyces coelicolor nucleoid.&quot; <i>J Proteomics</i> <b>83</b>:37&ndash;46; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23523638 23523638]; doi: [https://dx.doi.org/10.1016/j.jprot.2013.02.033 10.1016/j.jprot.2013.02.033]; GPMDB: [http://gpmdb.org/data/keyword/23523638 6].
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#Varjosalo M, Keskitalo S, Van Drogen A, Nurkkala H, Vichalkovski A, Aebersold R, Gstaiger M,  (2013) &quot;The protein interaction landscape of the human CMGC kinase group.&quot; <i>Cell Rep</i> <b>3</b>(4):1306&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23602568 23602568]; doi: [https://dx.doi.org/10.1016/j.celrep.2013.03.027 10.1016/j.celrep.2013.03.027]; GPMDB: [http://gpmdb.org/data/keyword/23602568 114].
#Varjosalo M, Keskitalo S, Van Drogen A, Nurkkala H, Vichalkovski A, Aebersold R, Gstaiger M,  (2013) &quot;The protein interaction landscape of the human CMGC kinase group.&quot; <i>Cell Rep</i> <b>3</b>(4):1306&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23602568 23602568]; doi: [https://dx.doi.org/10.1016/j.celrep.2013.03.027 10.1016/j.celrep.2013.03.027]; GPMDB: [http://gpmdb.org/data/keyword/23602568 114].
#Marcone S, Fitzgerald DJ,  (2013) &quot;Proteomic identification of the candidate target proteins of 15-deoxy-delta12,14-prostaglandin J2.&quot; <i>Proteomics</i> <b>13</b>(14):2135&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23606334 23606334]; doi: [https://dx.doi.org/10.1002/pmic.201200289 10.1002/pmic.201200289]; GPMDB: [http://gpmdb.org/data/keyword/23606334 62].
#Marcone S, Fitzgerald DJ,  (2013) &quot;Proteomic identification of the candidate target proteins of 15-deoxy-delta12,14-prostaglandin J2.&quot; <i>Proteomics</i> <b>13</b>(14):2135&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23606334 23606334]; doi: [https://dx.doi.org/10.1002/pmic.201200289 10.1002/pmic.201200289]; GPMDB: [http://gpmdb.org/data/keyword/23606334 62].
-
#Halim VA, Alvarez-Fernández M, Xu YJ, Aprelia M, van den Toorn HW, Heck AJ, Mohammed S, Medema RH,  (2013) &quot;Comparative phosphoproteomic analysis of checkpoint recovery identifies new regulators of the DNA damage response.&quot; <i>Sci Signal</i> <b>6</b>(272):rs9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23612710 23612710]; doi: [https://dx.doi.org/10.1126/scisignal.2003664 10.1126/scisignal.2003664]; GPMDB: [http://gpmdb.org/data/keyword/23612710 247].
+
#Halim VA, Alvarez-Fernández M, Xu YJ, Aprelia M, van den Toorn HW, Heck AJ, Mohammed S, Medema RH,  (2013) &quot;Comparative phosphoproteomic analysis of checkpoint recovery identifies new regulators of the DNA damage response.&quot; <i>Sci Signal</i> <b>6</b>(272):rs9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23612710 23612710]; doi: [https://dx.doi.org/10.1126/scisignal.2003664 10.1126/scisignal.2003664]; GPMDB: [http://gpmdb.org/data/keyword/23612710 247].
#Kooij V, Holewinski RJ, Murphy AM, Van Eyk JE,  (2013) &quot;Characterization of the cardiac myosin binding protein-C phosphoproteome in healthy and failing human hearts.&quot; <i>J Mol Cell Cardiol</i> <b>60</b>:116&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23619294 23619294]; doi: [https://dx.doi.org/10.1016/j.yjmcc.2013.04.012 10.1016/j.yjmcc.2013.04.012]; GPMDB: [http://gpmdb.org/data/keyword/23619294 87].
#Kooij V, Holewinski RJ, Murphy AM, Van Eyk JE,  (2013) &quot;Characterization of the cardiac myosin binding protein-C phosphoproteome in healthy and failing human hearts.&quot; <i>J Mol Cell Cardiol</i> <b>60</b>:116&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23619294 23619294]; doi: [https://dx.doi.org/10.1016/j.yjmcc.2013.04.012 10.1016/j.yjmcc.2013.04.012]; GPMDB: [http://gpmdb.org/data/keyword/23619294 87].
-
#Casado P, Alcolea MP, Iorio F, Rodríguez-Prados JC, Vanhaesebroeck B, Saez-Rodriguez J, Joel S, Cutillas PR,  (2013) &quot;Phosphoproteomics data classify hematological cancer cell lines according to tumor type and sensitivity to kinase inhibitors.&quot; <i>Genome Biol</i> <b>14</b>(4):R37; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23628362 23628362]; doi: [https://dx.doi.org/10.1186/gb-2013-14-4-r37 10.1186/gb-2013-14-4-r37]; GPMDB: [http://gpmdb.org/data/keyword/23628362 75].
+
#Casado P, Alcolea MP, Iorio F, Rodríguez-Prados JC, Vanhaesebroeck B, Saez-Rodriguez J, Joel S, Cutillas PR,  (2013) &quot;Phosphoproteomics data classify hematological cancer cell lines according to tumor type and sensitivity to kinase inhibitors.&quot; <i>Genome Biol</i> <b>14</b>(4):R37; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23628362 23628362]; doi: [https://dx.doi.org/10.1186/gb-2013-14-4-r37 10.1186/gb-2013-14-4-r37]; GPMDB: [http://gpmdb.org/data/keyword/23628362 75].
#Sheynkman GM, Shortreed MR, Frey BL, Smith LM,  (2013) &quot;Discovery and mass spectrometric analysis of novel splice-junction peptides using RNA-Seq.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(8):2341&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23629695 23629695]; doi: [https://dx.doi.org/10.1074/mcp.O113.028142 10.1074/mcp.O113.028142]; GPMDB: [http://gpmdb.org/data/keyword/23629695 28].
#Sheynkman GM, Shortreed MR, Frey BL, Smith LM,  (2013) &quot;Discovery and mass spectrometric analysis of novel splice-junction peptides using RNA-Seq.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(8):2341&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23629695 23629695]; doi: [https://dx.doi.org/10.1074/mcp.O113.028142 10.1074/mcp.O113.028142]; GPMDB: [http://gpmdb.org/data/keyword/23629695 28].
#Wijten P, van Holten T, Woo LL, Bleijerveld OB, Roest M, Heck AJ, Scholten A,  (2013) &quot;High precision platelet releasate definition by quantitative reversed protein profiling--brief report.&quot; <i>Arterioscler Thromb Vasc Biol</i> <b>33</b>(7):1635&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23640497 23640497]; doi: [https://dx.doi.org/10.1161/ATVBAHA.113.301147 10.1161/ATVBAHA.113.301147]; GPMDB: [http://gpmdb.org/data/keyword/23640497 82].
#Wijten P, van Holten T, Woo LL, Bleijerveld OB, Roest M, Heck AJ, Scholten A,  (2013) &quot;High precision platelet releasate definition by quantitative reversed protein profiling--brief report.&quot; <i>Arterioscler Thromb Vasc Biol</i> <b>33</b>(7):1635&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23640497 23640497]; doi: [https://dx.doi.org/10.1161/ATVBAHA.113.301147 10.1161/ATVBAHA.113.301147]; GPMDB: [http://gpmdb.org/data/keyword/23640497 82].
#Tauro BJ, Mathias RA, Greening DW, Gopal SK, Ji H, Kapp EA, Coleman BM, Hill AF, Kusebauch U, Hallows JL, Shteynberg D, Moritz RL, Zhu HJ, Simpson RJ,  (2013) &quot;Oncogenic H-ras reprograms Madin-Darby canine kidney (MDCK) cell-derived exosomal proteins following epithelial-mesenchymal transition.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(8):2148&ndash;59; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23645497 23645497]; doi: [https://dx.doi.org/10.1074/mcp.M112.027086 10.1074/mcp.M112.027086]; GPMDB: [http://gpmdb.org/data/keyword/23645497 187].
#Tauro BJ, Mathias RA, Greening DW, Gopal SK, Ji H, Kapp EA, Coleman BM, Hill AF, Kusebauch U, Hallows JL, Shteynberg D, Moritz RL, Zhu HJ, Simpson RJ,  (2013) &quot;Oncogenic H-ras reprograms Madin-Darby canine kidney (MDCK) cell-derived exosomal proteins following epithelial-mesenchymal transition.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(8):2148&ndash;59; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23645497 23645497]; doi: [https://dx.doi.org/10.1074/mcp.M112.027086 10.1074/mcp.M112.027086]; GPMDB: [http://gpmdb.org/data/keyword/23645497 187].
-
#Müller SA, Findeiß S, Pernitzsch SR, Wissenbach DK, Stadler PF, Hofacker IL, von Bergen M, Kalkhof S,  (2013) &quot;Identification of new protein coding sequences and signal peptidase cleavage sites of Helicobacter pylori strain 26695 by proteogenomics.&quot; <i>J Proteomics</i> <b>86</b>:27&ndash;42; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23665149 23665149]; doi: [https://dx.doi.org/10.1016/j.jprot.2013.04.036 10.1016/j.jprot.2013.04.036]; GPMDB: [http://gpmdb.org/data/keyword/23665149 63].
+
#Müller SA, Findeiß S, Pernitzsch SR, Wissenbach DK, Stadler PF, Hofacker IL, von Bergen M, Kalkhof S,  (2013) &quot;Identification of new protein coding sequences and signal peptidase cleavage sites of Helicobacter pylori strain 26695 by proteogenomics.&quot; <i>J Proteomics</i> <b>86</b>:27&ndash;42; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23665149 23665149]; doi: [https://dx.doi.org/10.1016/j.jprot.2013.04.036 10.1016/j.jprot.2013.04.036]; GPMDB: [http://gpmdb.org/data/keyword/23665149 63].
#Marimuthu A, Chavan S, Sathe G, Sahasrabuddhe NA, Srikanth SM, Renuse S, Ahmad S, Radhakrishnan A, Barbhuiya MA, Kumar RV, Harsha HC, Sidransky D, Califano J, Pandey A, Chatterjee A,  (2013) &quot;Identification of head and neck squamous cell carcinoma biomarker candidates through proteomic analysis of cancer cell secretome.&quot; <i>Biochim Biophys Acta</i> <b>1834</b>(11):2308&ndash;16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23665456 23665456]; doi: [https://dx.doi.org/10.1016/j.bbapap.2013.04.029 10.1016/j.bbapap.2013.04.029]; GPMDB: [http://gpmdb.org/data/keyword/23665456 23].
#Marimuthu A, Chavan S, Sathe G, Sahasrabuddhe NA, Srikanth SM, Renuse S, Ahmad S, Radhakrishnan A, Barbhuiya MA, Kumar RV, Harsha HC, Sidransky D, Califano J, Pandey A, Chatterjee A,  (2013) &quot;Identification of head and neck squamous cell carcinoma biomarker candidates through proteomic analysis of cancer cell secretome.&quot; <i>Biochim Biophys Acta</i> <b>1834</b>(11):2308&ndash;16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23665456 23665456]; doi: [https://dx.doi.org/10.1016/j.bbapap.2013.04.029 10.1016/j.bbapap.2013.04.029]; GPMDB: [http://gpmdb.org/data/keyword/23665456 23].
#Chen Z, Wen B, Wang Q, Tong W, Guo J, Bai X, Zhao J, Sun Y, Tang Q, Lin Z, Lin L, Liu S,  (2013) &quot;Quantitative proteomics reveals the temperature-dependent proteins encoded by a series of cluster genes in thermoanaerobacter tengcongensis.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(8):2266&ndash;77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23665590 23665590]; doi: [https://dx.doi.org/10.1074/mcp.M112.025817 10.1074/mcp.M112.025817]; GPMDB: [http://gpmdb.org/data/keyword/23665590 84].
#Chen Z, Wen B, Wang Q, Tong W, Guo J, Bai X, Zhao J, Sun Y, Tang Q, Lin Z, Lin L, Liu S,  (2013) &quot;Quantitative proteomics reveals the temperature-dependent proteins encoded by a series of cluster genes in thermoanaerobacter tengcongensis.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(8):2266&ndash;77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23665590 23665590]; doi: [https://dx.doi.org/10.1074/mcp.M112.025817 10.1074/mcp.M112.025817]; GPMDB: [http://gpmdb.org/data/keyword/23665590 84].
#Wu L, Candille SI, Choi Y, Xie D, Jiang L, Li-Pook-Than J, Tang H, Snyder M,  (2013) &quot;Variation and genetic control of protein abundance in humans.&quot; <i>Nature</i> <b>499</b>(7456):79&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23676674 23676674]; doi: [https://dx.doi.org/10.1038/nature12223 10.1038/nature12223]; GPMDB: [http://gpmdb.org/data/keyword/23676674 51].
#Wu L, Candille SI, Choi Y, Xie D, Jiang L, Li-Pook-Than J, Tang H, Snyder M,  (2013) &quot;Variation and genetic control of protein abundance in humans.&quot; <i>Nature</i> <b>499</b>(7456):79&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23676674 23676674]; doi: [https://dx.doi.org/10.1038/nature12223 10.1038/nature12223]; GPMDB: [http://gpmdb.org/data/keyword/23676674 51].
#Greening DW, Kapp EA, Ji H, Speed TP, Simpson RJ,  (2013) &quot;Colon tumour secretopeptidome: insights into endogenous proteolytic cleavage events in the colon tumour microenvironment.&quot; <i>Biochim Biophys Acta</i> <b>1834</b>(11):2396&ndash;407; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23684732 23684732]; doi: [https://dx.doi.org/10.1016/j.bbapap.2013.05.006 10.1016/j.bbapap.2013.05.006]; GPMDB: [http://gpmdb.org/data/keyword/23684732 4].
#Greening DW, Kapp EA, Ji H, Speed TP, Simpson RJ,  (2013) &quot;Colon tumour secretopeptidome: insights into endogenous proteolytic cleavage events in the colon tumour microenvironment.&quot; <i>Biochim Biophys Acta</i> <b>1834</b>(11):2396&ndash;407; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23684732 23684732]; doi: [https://dx.doi.org/10.1016/j.bbapap.2013.05.006 10.1016/j.bbapap.2013.05.006]; GPMDB: [http://gpmdb.org/data/keyword/23684732 4].
-
#Zhang L, Holmes IP, Hochgräfe F, Walker SR, Ali NA, Humphrey ES, Wu J, de Silva M, Kersten WJ, Connor T, Falk H, Allan L, Street IP, Bentley JD, Pilling PA, Monahan BJ, Peat TS, Daly RJ,  (2013) &quot;Characterization of the novel broad-spectrum kinase inhibitor CTx-0294885 as an affinity reagent for mass spectrometry-based kinome profiling.&quot; <i>J Proteome Res</i> <b>12</b>(7):3104&ndash;16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23692254 23692254]; doi: [https://dx.doi.org/10.1021/pr3008495 10.1021/pr3008495]; GPMDB: [http://gpmdb.org/data/keyword/23692254 106].
+
#Zhang L, Holmes IP, Hochgräfe F, Walker SR, Ali NA, Humphrey ES, Wu J, de Silva M, Kersten WJ, Connor T, Falk H, Allan L, Street IP, Bentley JD, Pilling PA, Monahan BJ, Peat TS, Daly RJ,  (2013) &quot;Characterization of the novel broad-spectrum kinase inhibitor CTx-0294885 as an affinity reagent for mass spectrometry-based kinome profiling.&quot; <i>J Proteome Res</i> <b>12</b>(7):3104&ndash;16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23692254 23692254]; doi: [https://dx.doi.org/10.1021/pr3008495 10.1021/pr3008495]; GPMDB: [http://gpmdb.org/data/keyword/23692254 106].
-
#Courcelles M, Frémin C, Voisin L, Lemieux S, Meloche S, Thibault P,  (2013) &quot;Phosphoproteome dynamics reveal novel ERK1/2 MAP kinase substrates with broad spectrum of functions.&quot; <i>Mol Syst Biol</i> <b>9</b>:669; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23712012 23712012]; doi: [https://dx.doi.org/10.1038/msb.2013.25 10.1038/msb.2013.25]; GPMDB: [http://gpmdb.org/data/keyword/23712012 124].
+
#Courcelles M, Frémin C, Voisin L, Lemieux S, Meloche S, Thibault P,  (2013) &quot;Phosphoproteome dynamics reveal novel ERK1/2 MAP kinase substrates with broad spectrum of functions.&quot; <i>Mol Syst Biol</i> <b>9</b>:669; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23712012 23712012]; doi: [https://dx.doi.org/10.1038/msb.2013.25 10.1038/msb.2013.25]; GPMDB: [http://gpmdb.org/data/keyword/23712012 124].
#Darville LN, Sokolowski BH,  (2013) &quot;In-depth proteomic analysis of mouse cochlear sensory epithelium by mass spectrometry.&quot; <i>J Proteome Res</i> <b>12</b>(8):3620&ndash;30; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23721421 23721421]; doi: [https://dx.doi.org/10.1021/pr4001338 10.1021/pr4001338]; GPMDB: [http://gpmdb.org/data/keyword/23721421 160].
#Darville LN, Sokolowski BH,  (2013) &quot;In-depth proteomic analysis of mouse cochlear sensory epithelium by mass spectrometry.&quot; <i>J Proteome Res</i> <b>12</b>(8):3620&ndash;30; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23721421 23721421]; doi: [https://dx.doi.org/10.1021/pr4001338 10.1021/pr4001338]; GPMDB: [http://gpmdb.org/data/keyword/23721421 160].
#Villamor JG, Kaschani F, Colby T, Oeljeklaus J, Zhao D, Kaiser M, Patricelli MP, van der Hoorn RA,  (2013) &quot;Profiling protein kinases and other ATP binding proteins in Arabidopsis using Acyl-ATP probes.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(9):2481&ndash;96; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23722185 23722185]; doi: [https://dx.doi.org/10.1074/mcp.M112.026278 10.1074/mcp.M112.026278]; GPMDB: [http://gpmdb.org/data/keyword/23722185 30].
#Villamor JG, Kaschani F, Colby T, Oeljeklaus J, Zhao D, Kaiser M, Patricelli MP, van der Hoorn RA,  (2013) &quot;Profiling protein kinases and other ATP binding proteins in Arabidopsis using Acyl-ATP probes.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(9):2481&ndash;96; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23722185 23722185]; doi: [https://dx.doi.org/10.1074/mcp.M112.026278 10.1074/mcp.M112.026278]; GPMDB: [http://gpmdb.org/data/keyword/23722185 30].
#Liberski AR, Al-Noubi MN, Rahman ZH, Halabi NM, Dib SS, Al-Mismar R, Billing AM, Krishnankutty R, Ahmad FS, Raynaud CM, Rafii A, Engholm-Keller K, Graumann J,  (2013) &quot;Adaptation of a commonly used, chemically defined medium for human embryonic stem cells to stable isotope labeling with amino acids in cell culture.&quot; <i>J Proteome Res</i> <b>12</b>(7):3233&ndash;45; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23734825 23734825]; doi: [https://dx.doi.org/10.1021/pr400099j 10.1021/pr400099j]; GPMDB: [http://gpmdb.org/data/keyword/23734825 13].
#Liberski AR, Al-Noubi MN, Rahman ZH, Halabi NM, Dib SS, Al-Mismar R, Billing AM, Krishnankutty R, Ahmad FS, Raynaud CM, Rafii A, Engholm-Keller K, Graumann J,  (2013) &quot;Adaptation of a commonly used, chemically defined medium for human embryonic stem cells to stable isotope labeling with amino acids in cell culture.&quot; <i>J Proteome Res</i> <b>12</b>(7):3233&ndash;45; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23734825 23734825]; doi: [https://dx.doi.org/10.1021/pr400099j 10.1021/pr400099j]; GPMDB: [http://gpmdb.org/data/keyword/23734825 13].
-
#Casabona MG, Vandenbrouck Y, Attree I, Couté Y,  (2013) &quot;Proteomic characterization of Pseudomonas aeruginosa PAO1 inner membrane.&quot; <i>Proteomics</i> <b>13</b>(16):2419&ndash;23; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23744604 23744604]; doi: [https://dx.doi.org/10.1002/pmic.201200565 10.1002/pmic.201200565]; GPMDB: [http://gpmdb.org/data/keyword/23744604 6].
+
#Casabona MG, Vandenbrouck Y, Attree I, Couté Y,  (2013) &quot;Proteomic characterization of Pseudomonas aeruginosa PAO1 inner membrane.&quot; <i>Proteomics</i> <b>13</b>(16):2419&ndash;23; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23744604 23744604]; doi: [https://dx.doi.org/10.1002/pmic.201200565 10.1002/pmic.201200565]; GPMDB: [http://gpmdb.org/data/keyword/23744604 6].
#Ross BD, Rosin L, Thomae AW, Hiatt MA, Vermaak D, de la Cruz AF, Imhof A, Mellone BG, Malik HS,  (2013) &quot;Stepwise evolution of essential centromere function in a Drosophila neogene.&quot; <i>Science</i> <b>340</b>(6137):1211&ndash;4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23744945 23744945]; doi: [https://dx.doi.org/10.1126/science.1234393 10.1126/science.1234393]; GPMDB: [http://gpmdb.org/data/keyword/23744945 18].
#Ross BD, Rosin L, Thomae AW, Hiatt MA, Vermaak D, de la Cruz AF, Imhof A, Mellone BG, Malik HS,  (2013) &quot;Stepwise evolution of essential centromere function in a Drosophila neogene.&quot; <i>Science</i> <b>340</b>(6137):1211&ndash;4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23744945 23744945]; doi: [https://dx.doi.org/10.1126/science.1234393 10.1126/science.1234393]; GPMDB: [http://gpmdb.org/data/keyword/23744945 18].
#Miura N, Shinohara M, Tatsukami Y, Sato Y, Morisaka H, Kuroda K, Ueda M,  (2013) &quot;Spatial reorganization of Saccharomyces cerevisiae enolase to alter carbon metabolism under hypoxia.&quot; <i>Eukaryot Cell</i> <b>12</b>(8):1106&ndash;19; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23748432 23748432]; doi: [https://dx.doi.org/10.1128/EC.00093-13 10.1128/EC.00093-13]; GPMDB: [http://gpmdb.org/data/keyword/23748432 8].
#Miura N, Shinohara M, Tatsukami Y, Sato Y, Morisaka H, Kuroda K, Ueda M,  (2013) &quot;Spatial reorganization of Saccharomyces cerevisiae enolase to alter carbon metabolism under hypoxia.&quot; <i>Eukaryot Cell</i> <b>12</b>(8):1106&ndash;19; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23748432 23748432]; doi: [https://dx.doi.org/10.1128/EC.00093-13 10.1128/EC.00093-13]; GPMDB: [http://gpmdb.org/data/keyword/23748432 8].
-
#Swaney DL, Beltrao P, Starita L, Guo A, Rush J, Fields S, Krogan NJ, Villén J,  (2013) &quot;Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.&quot; <i>Nat Methods</i> <b>10</b>(7):676&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23749301 23749301]; doi: [https://dx.doi.org/10.1038/nmeth.2519 10.1038/nmeth.2519]; GPMDB: [http://gpmdb.org/data/keyword/23749301 137].
+
#Swaney DL, Beltrao P, Starita L, Guo A, Rush J, Fields S, Krogan NJ, Villén J,  (2013) &quot;Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.&quot; <i>Nat Methods</i> <b>10</b>(7):676&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23749301 23749301]; doi: [https://dx.doi.org/10.1038/nmeth.2519 10.1038/nmeth.2519]; GPMDB: [http://gpmdb.org/data/keyword/23749301 137].
#Mertins P, Qiao JW, Patel J, Udeshi ND, Clauser KR, Mani DR, Burgess MW, Gillette MA, Jaffe JD, Carr SA,  (2013) &quot;Integrated proteomic analysis of post-translational modifications by serial enrichment.&quot; <i>Nat Methods</i> <b>10</b>(7):634&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23749302 23749302]; doi: [https://dx.doi.org/10.1038/nmeth.2518 10.1038/nmeth.2518]; GPMDB: [http://gpmdb.org/data/keyword/23749302 231].
#Mertins P, Qiao JW, Patel J, Udeshi ND, Clauser KR, Mani DR, Burgess MW, Gillette MA, Jaffe JD, Carr SA,  (2013) &quot;Integrated proteomic analysis of post-translational modifications by serial enrichment.&quot; <i>Nat Methods</i> <b>10</b>(7):634&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23749302 23749302]; doi: [https://dx.doi.org/10.1038/nmeth.2518 10.1038/nmeth.2518]; GPMDB: [http://gpmdb.org/data/keyword/23749302 231].
#Joshi P, Greco TM, Guise AJ, Luo Y, Yu F, Nesvizhskii AI, Cristea IM,  (2013) &quot;The functional interactome landscape of the human histone deacetylase family.&quot; <i>Mol Syst Biol</i> <b>9</b>:672; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23752268 23752268]; doi: [https://dx.doi.org/10.1038/msb.2013.26 10.1038/msb.2013.26]; GPMDB: [http://gpmdb.org/data/keyword/23752268 75].
#Joshi P, Greco TM, Guise AJ, Luo Y, Yu F, Nesvizhskii AI, Cristea IM,  (2013) &quot;The functional interactome landscape of the human histone deacetylase family.&quot; <i>Mol Syst Biol</i> <b>9</b>:672; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23752268 23752268]; doi: [https://dx.doi.org/10.1038/msb.2013.26 10.1038/msb.2013.26]; GPMDB: [http://gpmdb.org/data/keyword/23752268 75].
-
#Takahashi Y, Ebisu Y, Kinoshita T, Doi M, Okuma E, Murata Y, Shimazaki K,  (2013) &quot;bHLH transcription factors that facilitate K⁺ uptake during stomatal opening are repressed by abscisic acid through phosphorylation.&quot; <i>Sci Signal</i> <b>6</b>(280):ra48; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23779086 23779086]; doi: [https://dx.doi.org/10.1126/scisignal.2003760 10.1126/scisignal.2003760]; GPMDB: [http://gpmdb.org/data/keyword/23779086 2].
+
#Takahashi Y, Ebisu Y, Kinoshita T, Doi M, Okuma E, Murata Y, Shimazaki K,  (2013) &quot;bHLH transcription factors that facilitate K⁺ uptake during stomatal opening are repressed by abscisic acid through phosphorylation.&quot; <i>Sci Signal</i> <b>6</b>(280):ra48; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23779086 23779086]; doi: [https://dx.doi.org/10.1126/scisignal.2003760 10.1126/scisignal.2003760]; GPMDB: [http://gpmdb.org/data/keyword/23779086 2].
#Freund DM, Prenni JE, Curthoys NP,  (2013) &quot;Proteomic profiling of the mitochondrial inner membrane of rat renal proximal convoluted tubules.&quot; <i>Proteomics</i> <b>13</b>(16):2495&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23780708 23780708]; doi: [https://dx.doi.org/10.1002/pmic.201200558 10.1002/pmic.201200558]; GPMDB: [http://gpmdb.org/data/keyword/23780708 10].
#Freund DM, Prenni JE, Curthoys NP,  (2013) &quot;Proteomic profiling of the mitochondrial inner membrane of rat renal proximal convoluted tubules.&quot; <i>Proteomics</i> <b>13</b>(16):2495&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23780708 23780708]; doi: [https://dx.doi.org/10.1002/pmic.201200558 10.1002/pmic.201200558]; GPMDB: [http://gpmdb.org/data/keyword/23780708 10].
#Maier SK, Hahne H, Gholami AM, Balluff B, Meding S, Schoene C, Walch AK, Kuster B,  (2013) &quot;Comprehensive identification of proteins from MALDI imaging.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(10):2901&ndash;10; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23782541 23782541]; doi: [https://dx.doi.org/10.1074/mcp.M113.027599 10.1074/mcp.M113.027599]; GPMDB: [http://gpmdb.org/data/keyword/23782541 215].
#Maier SK, Hahne H, Gholami AM, Balluff B, Meding S, Schoene C, Walch AK, Kuster B,  (2013) &quot;Comprehensive identification of proteins from MALDI imaging.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(10):2901&ndash;10; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23782541 23782541]; doi: [https://dx.doi.org/10.1074/mcp.M113.027599 10.1074/mcp.M113.027599]; GPMDB: [http://gpmdb.org/data/keyword/23782541 215].
#Tanca A, Biosa G, Pagnozzi D, Addis MF, Uzzau S,  (2013) &quot;Comparison of detergent-based sample preparation workflows for LTQ-Orbitrap analysis of the Escherichia coli proteome.&quot; <i>Proteomics</i> <b>13</b>(17):2597&ndash;607; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23784971 23784971]; doi: [https://dx.doi.org/10.1002/pmic.201200478 10.1002/pmic.201200478]; GPMDB: [http://gpmdb.org/data/keyword/23784971 131].
#Tanca A, Biosa G, Pagnozzi D, Addis MF, Uzzau S,  (2013) &quot;Comparison of detergent-based sample preparation workflows for LTQ-Orbitrap analysis of the Escherichia coli proteome.&quot; <i>Proteomics</i> <b>13</b>(17):2597&ndash;607; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23784971 23784971]; doi: [https://dx.doi.org/10.1002/pmic.201200478 10.1002/pmic.201200478]; GPMDB: [http://gpmdb.org/data/keyword/23784971 131].
-
#Hansen AM, Chaerkady R, Sharma J, Díaz-Mejía JJ, Tyagi N, Renuse S, Jacob HK, Pinto SM, Sahasrabuddhe NA, Kim MS, Delanghe B, Srinivasan N, Emili A, Kaper JB, Pandey A,  (2013) &quot;The Escherichia coli phosphotyrosine proteome relates to core pathways and virulence.&quot; <i>PLoS Pathog</i> <b>9</b>(6):e1003403; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23785281 23785281]; doi: [https://dx.doi.org/10.1371/journal.ppat.1003403 10.1371/journal.ppat.1003403]; GPMDB: [http://gpmdb.org/data/keyword/23785281 24].
+
#Hansen AM, Chaerkady R, Sharma J, Díaz-Mejía JJ, Tyagi N, Renuse S, Jacob HK, Pinto SM, Sahasrabuddhe NA, Kim MS, Delanghe B, Srinivasan N, Emili A, Kaper JB, Pandey A,  (2013) &quot;The Escherichia coli phosphotyrosine proteome relates to core pathways and virulence.&quot; <i>PLoS Pathog</i> <b>9</b>(6):e1003403; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23785281 23785281]; doi: [https://dx.doi.org/10.1371/journal.ppat.1003403 10.1371/journal.ppat.1003403]; GPMDB: [http://gpmdb.org/data/keyword/23785281 24].
-
#Prewitz MC, Seib FP, von Bonin M, Friedrichs J, Stißel A, Niehage C, Müller K, Anastassiadis K, Waskow C, Hoflack B, Bornhäuser M, Werner C,  (2013) &quot;Tightly anchored tissue-mimetic matrices as instructive stem cell microenvironments.&quot; <i>Nat Methods</i> <b>10</b>(8):788&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23793238 23793238]; doi: [https://dx.doi.org/10.1038/nmeth.2523 10.1038/nmeth.2523]; GPMDB: [http://gpmdb.org/data/keyword/23793238 108].
+
#Prewitz MC, Seib FP, von Bonin M, Friedrichs J, Stißel A, Niehage C, Müller K, Anastassiadis K, Waskow C, Hoflack B, Bornhäuser M, Werner C,  (2013) &quot;Tightly anchored tissue-mimetic matrices as instructive stem cell microenvironments.&quot; <i>Nat Methods</i> <b>10</b>(8):788&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23793238 23793238]; doi: [https://dx.doi.org/10.1038/nmeth.2523 10.1038/nmeth.2523]; GPMDB: [http://gpmdb.org/data/keyword/23793238 108].
#Xiang F, Guo X, Chen W, Wang J, Zhou T, Huang F, Cao C, Chen X,  (2013) &quot;Proteomics analysis of human pericardial fluid.&quot; <i>Proteomics</i> <b>13</b>(17):2692&ndash;5; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23797974 23797974]; doi: [https://dx.doi.org/10.1002/pmic.201200317 10.1002/pmic.201200317]; GPMDB: [http://gpmdb.org/data/keyword/23797974 59].
#Xiang F, Guo X, Chen W, Wang J, Zhou T, Huang F, Cao C, Chen X,  (2013) &quot;Proteomics analysis of human pericardial fluid.&quot; <i>Proteomics</i> <b>13</b>(17):2692&ndash;5; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23797974 23797974]; doi: [https://dx.doi.org/10.1002/pmic.201200317 10.1002/pmic.201200317]; GPMDB: [http://gpmdb.org/data/keyword/23797974 59].
-
#Kosanam H, Prassas I, Chrystoja CC, Soleas I, Chan A, Dimitromanolakis A, Blasutig IM, Rückert F, Gruetzmann R, Pilarsky C, Maekawa M, Brand R, Diamandis EP,  (2013) &quot;Laminin, gamma 2 (LAMC2): a promising new putative pancreatic cancer biomarker identified by proteomic analysis of pancreatic adenocarcinoma tissues.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(10):2820&ndash;32; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23798558 23798558]; doi: [https://dx.doi.org/10.1074/mcp.M112.023507 10.1074/mcp.M112.023507]; GPMDB: [http://gpmdb.org/data/keyword/23798558 112].
+
#Kosanam H, Prassas I, Chrystoja CC, Soleas I, Chan A, Dimitromanolakis A, Blasutig IM, Rückert F, Gruetzmann R, Pilarsky C, Maekawa M, Brand R, Diamandis EP,  (2013) &quot;Laminin, gamma 2 (LAMC2): a promising new putative pancreatic cancer biomarker identified by proteomic analysis of pancreatic adenocarcinoma tissues.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(10):2820&ndash;32; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23798558 23798558]; doi: [https://dx.doi.org/10.1074/mcp.M112.023507 10.1074/mcp.M112.023507]; GPMDB: [http://gpmdb.org/data/keyword/23798558 112].
-
#Vialas V, Sun Z, Loureiro y Penha CV, Carrascal M, Abián J, Monteoliva L, Deutsch EW, Aebersold R, Moritz RL, Gil C,  (2014) &quot;A Candida albicans PeptideAtlas.&quot; <i>J Proteomics</i> <b>97</b>:62&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23811049 23811049]; doi: [https://dx.doi.org/10.1016/j.jprot.2013.06.020 10.1016/j.jprot.2013.06.020]; GPMDB: [http://gpmdb.org/data/keyword/23811049 148].
+
#Vialas V, Sun Z, Loureiro y Penha CV, Carrascal M, Abián J, Monteoliva L, Deutsch EW, Aebersold R, Moritz RL, Gil C,  (2014) &quot;A Candida albicans PeptideAtlas.&quot; <i>J Proteomics</i> <b>97</b>:62&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23811049 23811049]; doi: [https://dx.doi.org/10.1016/j.jprot.2013.06.020 10.1016/j.jprot.2013.06.020]; GPMDB: [http://gpmdb.org/data/keyword/23811049 148].
-
#Höhner R, Barth J, Magneschi L, Jaeger D, Niehues A, Bald T, Grossman A, Fufezan C, Hippler M,  (2013) &quot;The metabolic status drives acclimation of iron deficiency responses in Chlamydomonas reinhardtii as revealed by proteomics based hierarchical clustering and reverse genetics.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(10):2774&ndash;90; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23820728 23820728]; doi: [https://dx.doi.org/10.1074/mcp.M113.029991 10.1074/mcp.M113.029991]; GPMDB: [http://gpmdb.org/data/keyword/23820728 669].
+
#Höhner R, Barth J, Magneschi L, Jaeger D, Niehues A, Bald T, Grossman A, Fufezan C, Hippler M,  (2013) &quot;The metabolic status drives acclimation of iron deficiency responses in Chlamydomonas reinhardtii as revealed by proteomics based hierarchical clustering and reverse genetics.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(10):2774&ndash;90; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23820728 23820728]; doi: [https://dx.doi.org/10.1074/mcp.M113.029991 10.1074/mcp.M113.029991]; GPMDB: [http://gpmdb.org/data/keyword/23820728 669].
#Stout GJ, Stigter EC, Essers PB, Mulder KW, Kolkman A, Snijders DS, van den Broek NJ, Betist MC, Korswagen HC, Macinnes AW, Brenkman AB,  (2013) &quot;Insulin/IGF-1-mediated longevity is marked by reduced protein metabolism.&quot; <i>Mol Syst Biol</i> <b>9</b>:679; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23820781 23820781]; doi: [https://dx.doi.org/10.1038/msb.2013.35 10.1038/msb.2013.35]; GPMDB: [http://gpmdb.org/data/keyword/23820781 66].
#Stout GJ, Stigter EC, Essers PB, Mulder KW, Kolkman A, Snijders DS, van den Broek NJ, Betist MC, Korswagen HC, Macinnes AW, Brenkman AB,  (2013) &quot;Insulin/IGF-1-mediated longevity is marked by reduced protein metabolism.&quot; <i>Mol Syst Biol</i> <b>9</b>:679; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23820781 23820781]; doi: [https://dx.doi.org/10.1038/msb.2013.35 10.1038/msb.2013.35]; GPMDB: [http://gpmdb.org/data/keyword/23820781 66].
-
#Bottermann K, Reinartz M, Barsoum M, Kötter S, Gödecke A,  (2013) &quot;Systematic Analysis Reveals Elongation Factor 2 and α-Enolase as Novel Interaction Partners of AKT2.&quot; <i>PLoS One</i> <b>8</b>(6):e66045; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23823123 23823123]; doi: [https://dx.doi.org/10.1371/journal.pone.0066045 10.1371/journal.pone.0066045]; GPMDB: [http://gpmdb.org/data/keyword/23823123 4].
+
#Bottermann K, Reinartz M, Barsoum M, Kötter S, Gödecke A,  (2013) &quot;Systematic Analysis Reveals Elongation Factor 2 and α-Enolase as Novel Interaction Partners of AKT2.&quot; <i>PLoS One</i> <b>8</b>(6):e66045; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23823123 23823123]; doi: [https://dx.doi.org/10.1371/journal.pone.0066045 10.1371/journal.pone.0066045]; GPMDB: [http://gpmdb.org/data/keyword/23823123 4].
-
#Rodríguez-Piñeiro AM, Bergström JH, Ermund A, Gustafsson JK, Schütte A, Johansson ME, Hansson GC,  (2013) &quot;Studies of mucus in mouse stomach, small intestine, and colon. II. Gastrointestinal mucus proteome reveals Muc2 and Muc5ac accompanied by a set of core proteins.&quot; <i>Am J Physiol Gastrointest Liver Physiol</i> <b>305</b>(5):G348&ndash;56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23832517 23832517]; doi: [https://dx.doi.org/10.1152/ajpgi.00047.2013 10.1152/ajpgi.00047.2013]; GPMDB: [http://gpmdb.org/data/keyword/23832517 72].
+
#Rodríguez-Piñeiro AM, Bergström JH, Ermund A, Gustafsson JK, Schütte A, Johansson ME, Hansson GC,  (2013) &quot;Studies of mucus in mouse stomach, small intestine, and colon. II. Gastrointestinal mucus proteome reveals Muc2 and Muc5ac accompanied by a set of core proteins.&quot; <i>Am J Physiol Gastrointest Liver Physiol</i> <b>305</b>(5):G348&ndash;56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23832517 23832517]; doi: [https://dx.doi.org/10.1152/ajpgi.00047.2013 10.1152/ajpgi.00047.2013]; GPMDB: [http://gpmdb.org/data/keyword/23832517 72].
#Konvalinka A, Zhou J, Dimitromanolakis A, Drabovich AP, Fang F, Gurley S, Coffman T, John R, Zhang SL, Diamandis EP, Scholey JW,  (2013) &quot;Determination of an angiotensin II-regulated proteome in primary human kidney cells by stable isotope labeling of amino acids in cell culture (SILAC).&quot; <i>J Biol Chem</i> <b>288</b>(34):24834&ndash;47; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23846697 23846697]; doi: [https://dx.doi.org/10.1074/jbc.M113.485326 10.1074/jbc.M113.485326]; GPMDB: [http://gpmdb.org/data/keyword/23846697 204].
#Konvalinka A, Zhou J, Dimitromanolakis A, Drabovich AP, Fang F, Gurley S, Coffman T, John R, Zhang SL, Diamandis EP, Scholey JW,  (2013) &quot;Determination of an angiotensin II-regulated proteome in primary human kidney cells by stable isotope labeling of amino acids in cell culture (SILAC).&quot; <i>J Biol Chem</i> <b>288</b>(34):24834&ndash;47; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23846697 23846697]; doi: [https://dx.doi.org/10.1074/jbc.M113.485326 10.1074/jbc.M113.485326]; GPMDB: [http://gpmdb.org/data/keyword/23846697 204].
#Zhou F, Lu Y, Ficarro SB, Adelmant G, Jiang W, Luckey CJ, Marto JA,  (2013) &quot;Genome-scale proteome quantification by DEEP SEQ mass spectrometry.&quot; <i>Nat Commun</i> <b>4</b>:2171; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23863870 23863870]; doi: [https://dx.doi.org/10.1038/ncomms3171 10.1038/ncomms3171]; GPMDB: [http://gpmdb.org/data/keyword/23863870 60].
#Zhou F, Lu Y, Ficarro SB, Adelmant G, Jiang W, Luckey CJ, Marto JA,  (2013) &quot;Genome-scale proteome quantification by DEEP SEQ mass spectrometry.&quot; <i>Nat Commun</i> <b>4</b>:2171; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23863870 23863870]; doi: [https://dx.doi.org/10.1038/ncomms3171 10.1038/ncomms3171]; GPMDB: [http://gpmdb.org/data/keyword/23863870 60].
-
#Johansson HJ, Sanchez BC, Mundt F, Forshed J, Kovacs A, Panizza E, Hultin-Rosenberg L, Lundgren B, Martens U, Máthé G, Yakhini Z, Helou K, Krawiec K, Kanter L, Hjerpe A, Stål O, Linderholm BK, Lehtiö J,  (2013) &quot;Retinoic acid receptor alpha is associated with tamoxifen resistance in breast cancer.&quot; <i>Nat Commun</i> <b>4</b>:2175; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23868472 23868472]; doi: [https://dx.doi.org/10.1038/ncomms3175 10.1038/ncomms3175]; GPMDB: [http://gpmdb.org/data/keyword/23868472 144].
+
#Johansson HJ, Sanchez BC, Mundt F, Forshed J, Kovacs A, Panizza E, Hultin-Rosenberg L, Lundgren B, Martens U, Máthé G, Yakhini Z, Helou K, Krawiec K, Kanter L, Hjerpe A, StÃ¥l O, Linderholm BK, Lehtiö J,  (2013) &quot;Retinoic acid receptor alpha is associated with tamoxifen resistance in breast cancer.&quot; <i>Nat Commun</i> <b>4</b>:2175; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23868472 23868472]; doi: [https://dx.doi.org/10.1038/ncomms3175 10.1038/ncomms3175]; GPMDB: [http://gpmdb.org/data/keyword/23868472 144].
#Prasad TS, Verma R, Kumar S, Nirujogi RS, Sathe GJ, Madugundu AK, Sharma J, Puttamallesh VN, Ganjiwale A, Myneedu VP, Chatterjee A, Pandey A, Harsha H, Narayana J,  (2013) &quot;Proteomic analysis of purified protein derivative of Mycobacterium tuberculosis.&quot; <i>Clin Proteomics</i> <b>10</b>(1):8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23870090 23870090]; doi: [https://dx.doi.org/10.1186/1559-0275-10-8 10.1186/1559-0275-10-8]; GPMDB: [http://gpmdb.org/data/keyword/23870090 1].
#Prasad TS, Verma R, Kumar S, Nirujogi RS, Sathe GJ, Madugundu AK, Sharma J, Puttamallesh VN, Ganjiwale A, Myneedu VP, Chatterjee A, Pandey A, Harsha H, Narayana J,  (2013) &quot;Proteomic analysis of purified protein derivative of Mycobacterium tuberculosis.&quot; <i>Clin Proteomics</i> <b>10</b>(1):8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23870090 23870090]; doi: [https://dx.doi.org/10.1186/1559-0275-10-8 10.1186/1559-0275-10-8]; GPMDB: [http://gpmdb.org/data/keyword/23870090 1].
#Omasits U, Quebatte M, Stekhoven DJ, Fortes C, Roschitzki B, Robinson MD, Dehio C, Ahrens CH,  (2013) &quot;Directed shotgun proteomics guided by saturated RNA-seq identifies a complete expressed prokaryotic proteome.&quot; <i>Genome Res</i> <b>23</b>(11):1916&ndash;27; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23878158 23878158]; doi: [https://dx.doi.org/10.1101/gr.151035.112 10.1101/gr.151035.112]; GPMDB: [http://gpmdb.org/data/keyword/23878158 26].
#Omasits U, Quebatte M, Stekhoven DJ, Fortes C, Roschitzki B, Robinson MD, Dehio C, Ahrens CH,  (2013) &quot;Directed shotgun proteomics guided by saturated RNA-seq identifies a complete expressed prokaryotic proteome.&quot; <i>Genome Res</i> <b>23</b>(11):1916&ndash;27; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23878158 23878158]; doi: [https://dx.doi.org/10.1101/gr.151035.112 10.1101/gr.151035.112]; GPMDB: [http://gpmdb.org/data/keyword/23878158 26].
-
#Xia L, Wang TD, Shen SM, Zhao M, Sun H, He Y, Xie L, Wu ZX, Han SF, Wang LS, Chen GQ,  (2013) &quot;Phosphoproteomics study on the activated PKCδ-induced cell death.&quot; <i>J Proteome Res</i> <b>12</b>(10):4280&ndash;301; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23879269 23879269]; doi: [https://dx.doi.org/10.1021/pr400089v 10.1021/pr400089v]; GPMDB: [http://gpmdb.org/data/keyword/23879269 385].
+
#Xia L, Wang TD, Shen SM, Zhao M, Sun H, He Y, Xie L, Wu ZX, Han SF, Wang LS, Chen GQ,  (2013) &quot;Phosphoproteomics study on the activated PKCδ-induced cell death.&quot; <i>J Proteome Res</i> <b>12</b>(10):4280&ndash;301; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23879269 23879269]; doi: [https://dx.doi.org/10.1021/pr400089v 10.1021/pr400089v]; GPMDB: [http://gpmdb.org/data/keyword/23879269 385].
#Chen YY, Chambers MC, Li M, Ham AJ, Turner JL, Zhang B, Tabb DL,  (2013) &quot;IDPQuantify: combining precursor intensity with spectral counts for protein and peptide quantification.&quot; <i>J Proteome Res</i> <b>12</b>(9):4111&ndash;21; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23879310 23879310]; doi: [https://dx.doi.org/10.1021/pr400438q 10.1021/pr400438q]; GPMDB: [http://gpmdb.org/data/keyword/23879310 23].
#Chen YY, Chambers MC, Li M, Ham AJ, Turner JL, Zhang B, Tabb DL,  (2013) &quot;IDPQuantify: combining precursor intensity with spectral counts for protein and peptide quantification.&quot; <i>J Proteome Res</i> <b>12</b>(9):4111&ndash;21; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23879310 23879310]; doi: [https://dx.doi.org/10.1021/pr400438q 10.1021/pr400438q]; GPMDB: [http://gpmdb.org/data/keyword/23879310 23].
-
#Chamrád I, Rix U, Stukalov A, Gridling M, Parapatics K, Müller AC, Altiok S, Colinge J, Superti-Furga G, Haura EB, Bennett KL,  (2013) &quot;A miniaturized chemical proteomic approach for target profiling of clinical kinase inhibitors in tumor biopsies.&quot; <i>J Proteome Res</i> <b>12</b>(9):4005&ndash;17; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23901793 23901793]; doi: [https://dx.doi.org/10.1021/pr400309p 10.1021/pr400309p]; GPMDB: [http://gpmdb.org/data/keyword/23901793 56].
+
#Chamrád I, Rix U, Stukalov A, Gridling M, Parapatics K, Müller AC, Altiok S, Colinge J, Superti-Furga G, Haura EB, Bennett KL,  (2013) &quot;A miniaturized chemical proteomic approach for target profiling of clinical kinase inhibitors in tumor biopsies.&quot; <i>J Proteome Res</i> <b>12</b>(9):4005&ndash;17; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23901793 23901793]; doi: [https://dx.doi.org/10.1021/pr400309p 10.1021/pr400309p]; GPMDB: [http://gpmdb.org/data/keyword/23901793 56].
#Oosterkamp MJ, Boeren S, Plugge CM, Schaap PJ, Stams AJ,  (2013) &quot;Metabolic response of Alicycliphilus denitrificans strain BC toward electron acceptor variation.&quot; <i>Proteomics</i> <b>13</b>(18-19):2886&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23907812 23907812]; doi: [https://dx.doi.org/10.1002/pmic.201200571 10.1002/pmic.201200571]; GPMDB: [http://gpmdb.org/data/keyword/23907812 16].
#Oosterkamp MJ, Boeren S, Plugge CM, Schaap PJ, Stams AJ,  (2013) &quot;Metabolic response of Alicycliphilus denitrificans strain BC toward electron acceptor variation.&quot; <i>Proteomics</i> <b>13</b>(18-19):2886&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23907812 23907812]; doi: [https://dx.doi.org/10.1002/pmic.201200571 10.1002/pmic.201200571]; GPMDB: [http://gpmdb.org/data/keyword/23907812 16].
#Moghaddas Gholami A, Hahne H, Wu Z, Auer FJ, Meng C, Wilhelm M, Kuster B,  (2013) &quot;Global proteome analysis of the NCI-60 cell line panel.&quot; <i>Cell Rep</i> <b>4</b>(3):609&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23933261 23933261]; doi: [https://dx.doi.org/10.1016/j.celrep.2013.07.018 10.1016/j.celrep.2013.07.018]; GPMDB: [http://gpmdb.org/data/keyword/23933261 899].
#Moghaddas Gholami A, Hahne H, Wu Z, Auer FJ, Meng C, Wilhelm M, Kuster B,  (2013) &quot;Global proteome analysis of the NCI-60 cell line panel.&quot; <i>Cell Rep</i> <b>4</b>(3):609&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23933261 23933261]; doi: [https://dx.doi.org/10.1016/j.celrep.2013.07.018 10.1016/j.celrep.2013.07.018]; GPMDB: [http://gpmdb.org/data/keyword/23933261 899].
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#Han D, Moon S, Kim Y, Kim J, Jin J, Kim Y,  (2013) &quot;In-depth proteomic analysis of mouse microglia using a combination of FASP and StageTip-based, high pH, reversed-phase fractionation.&quot; <i>Proteomics</i> <b>13</b>(20):2984&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23943505 23943505]; doi: [https://dx.doi.org/10.1002/pmic.201300091 10.1002/pmic.201300091]; GPMDB: [http://gpmdb.org/data/keyword/23943505 36].
#Han D, Moon S, Kim Y, Kim J, Jin J, Kim Y,  (2013) &quot;In-depth proteomic analysis of mouse microglia using a combination of FASP and StageTip-based, high pH, reversed-phase fractionation.&quot; <i>Proteomics</i> <b>13</b>(20):2984&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23943505 23943505]; doi: [https://dx.doi.org/10.1002/pmic.201300091 10.1002/pmic.201300091]; GPMDB: [http://gpmdb.org/data/keyword/23943505 36].
#Ulrich C, Quilici DR, Schlauch KA, Buxton IL,  (2013) &quot;The human uterine smooth muscle S-nitrosoproteome fingerprint in pregnancy, labor, and preterm labor.&quot; <i>Am J Physiol Cell Physiol</i> <b>305</b>(8):C803&ndash;16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23948706 23948706]; doi: [https://dx.doi.org/10.1152/ajpcell.00198.2013 10.1152/ajpcell.00198.2013]; GPMDB: [http://gpmdb.org/data/keyword/23948706 9].
#Ulrich C, Quilici DR, Schlauch KA, Buxton IL,  (2013) &quot;The human uterine smooth muscle S-nitrosoproteome fingerprint in pregnancy, labor, and preterm labor.&quot; <i>Am J Physiol Cell Physiol</i> <b>305</b>(8):C803&ndash;16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23948706 23948706]; doi: [https://dx.doi.org/10.1152/ajpcell.00198.2013 10.1152/ajpcell.00198.2013]; GPMDB: [http://gpmdb.org/data/keyword/23948706 9].
-
#Liu NQ, Dekker LJ, Stingl C, Güzel C, De Marchi T, Martens JW, Foekens JA, Luider TM, Umar A,  (2013) &quot;Quantitative proteomic analysis of microdissected breast cancer tissues: comparison of label-free and SILAC-based quantification with shotgun, directed, and targeted MS approaches.&quot; <i>J Proteome Res</i> <b>12</b>(10):4627&ndash;41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23957277 23957277]; doi: [https://dx.doi.org/10.1021/pr4005794 10.1021/pr4005794]; GPMDB: [http://gpmdb.org/data/keyword/23957277 57].
+
#Liu NQ, Dekker LJ, Stingl C, Güzel C, De Marchi T, Martens JW, Foekens JA, Luider TM, Umar A,  (2013) &quot;Quantitative proteomic analysis of microdissected breast cancer tissues: comparison of label-free and SILAC-based quantification with shotgun, directed, and targeted MS approaches.&quot; <i>J Proteome Res</i> <b>12</b>(10):4627&ndash;41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23957277 23957277]; doi: [https://dx.doi.org/10.1021/pr4005794 10.1021/pr4005794]; GPMDB: [http://gpmdb.org/data/keyword/23957277 57].
-
#Hahne H, Pachl F, Ruprecht B, Maier SK, Klaeger S, Helm D, Médard G, Wilm M, Lemeer S, Kuster B,  (2013) &quot;DMSO enhances electrospray response, boosting sensitivity of proteomic experiments.&quot; <i>Nat Methods</i> <b>10</b>(10):989&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23975139 23975139]; doi: [https://dx.doi.org/10.1038/nmeth.2610 10.1038/nmeth.2610]; GPMDB: [http://gpmdb.org/data/keyword/23975139 64].
+
#Hahne H, Pachl F, Ruprecht B, Maier SK, Klaeger S, Helm D, Médard G, Wilm M, Lemeer S, Kuster B,  (2013) &quot;DMSO enhances electrospray response, boosting sensitivity of proteomic experiments.&quot; <i>Nat Methods</i> <b>10</b>(10):989&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23975139 23975139]; doi: [https://dx.doi.org/10.1038/nmeth.2610 10.1038/nmeth.2610]; GPMDB: [http://gpmdb.org/data/keyword/23975139 64].
#Lewandowska D, ten Have S, Hodge K, Tillemans V, Lamond AI, Brown JW,  (2013) &quot;Plant SILAC: stable-isotope labelling with amino acids of arabidopsis seedlings for quantitative proteomics.&quot; <i>PLoS One</i> <b>8</b>(8):e72207; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23977254 23977254]; doi: [https://dx.doi.org/10.1371/journal.pone.0072207 10.1371/journal.pone.0072207]; GPMDB: [http://gpmdb.org/data/keyword/23977254 50].
#Lewandowska D, ten Have S, Hodge K, Tillemans V, Lamond AI, Brown JW,  (2013) &quot;Plant SILAC: stable-isotope labelling with amino acids of arabidopsis seedlings for quantitative proteomics.&quot; <i>PLoS One</i> <b>8</b>(8):e72207; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23977254 23977254]; doi: [https://dx.doi.org/10.1371/journal.pone.0072207 10.1371/journal.pone.0072207]; GPMDB: [http://gpmdb.org/data/keyword/23977254 50].
-
#Zanivan S, Maione F, Hein MY, Hernández-Fernaud JR, Ostasiewicz P, Giraudo E, Mann M,  (2013) &quot;SILAC-based proteomics of human primary endothelial cell morphogenesis unveils tumor angiogenic markers.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(12):3599&ndash;611; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23979707 23979707]; doi: [https://dx.doi.org/10.1074/mcp.M113.031344 10.1074/mcp.M113.031344]; GPMDB: [http://gpmdb.org/data/keyword/23979707 452].
+
#Zanivan S, Maione F, Hein MY, Hernández-Fernaud JR, Ostasiewicz P, Giraudo E, Mann M,  (2013) &quot;SILAC-based proteomics of human primary endothelial cell morphogenesis unveils tumor angiogenic markers.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(12):3599&ndash;611; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23979707 23979707]; doi: [https://dx.doi.org/10.1074/mcp.M113.031344 10.1074/mcp.M113.031344]; GPMDB: [http://gpmdb.org/data/keyword/23979707 452].
#Lichtman JS, Marcobal A, Sonnenburg JL, Elias JE,  (2013) &quot;Host-centric proteomics of stool: a novel strategy focused on intestinal responses to the gut microbiota.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(11):3310&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23982161 23982161]; doi: [https://dx.doi.org/10.1074/mcp.M113.029967 10.1074/mcp.M113.029967]; GPMDB: [http://gpmdb.org/data/keyword/23982161 289].
#Lichtman JS, Marcobal A, Sonnenburg JL, Elias JE,  (2013) &quot;Host-centric proteomics of stool: a novel strategy focused on intestinal responses to the gut microbiota.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(11):3310&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23982161 23982161]; doi: [https://dx.doi.org/10.1074/mcp.M113.029967 10.1074/mcp.M113.029967]; GPMDB: [http://gpmdb.org/data/keyword/23982161 289].
#Ueda K, Tatsuguchi A, Saichi N, Toyama A, Tamura K, Furihata M, Takata R, Akamatsu S, Igarashi M, Nakayama M, Sato TA, Ogawa O, Fujioka T, Shuin T, Nakamura Y, Nakagawa H,  (2013) &quot;Plasma low-molecular-weight proteome profiling identified neuropeptide-Y as a prostate cancer biomarker polypeptide.&quot; <i>J Proteome Res</i> <b>12</b>(10):4497&ndash;506; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23991666 23991666]; doi: [https://dx.doi.org/10.1021/pr400547s 10.1021/pr400547s]; GPMDB: [http://gpmdb.org/data/keyword/23991666 116].
#Ueda K, Tatsuguchi A, Saichi N, Toyama A, Tamura K, Furihata M, Takata R, Akamatsu S, Igarashi M, Nakayama M, Sato TA, Ogawa O, Fujioka T, Shuin T, Nakamura Y, Nakagawa H,  (2013) &quot;Plasma low-molecular-weight proteome profiling identified neuropeptide-Y as a prostate cancer biomarker polypeptide.&quot; <i>J Proteome Res</i> <b>12</b>(10):4497&ndash;506; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23991666 23991666]; doi: [https://dx.doi.org/10.1021/pr400547s 10.1021/pr400547s]; GPMDB: [http://gpmdb.org/data/keyword/23991666 116].
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#Jones KA, Kim PD, Patel BB, Kelsen SG, Braverman A, Swinton DJ, Gafken PR, Jones LA, Lane WS, Neveu JM, Leung HC, Shaffer SA, Leszyk JD, Stanley BA, Fox TE, Stanley A, Hall MJ, Hampel H, South CD, de la Chapelle A, Burt RW, Jones DA, Kopelovich L, Yeung AT,  (2013) &quot;Immunodepletion plasma proteomics by tripleTOF 5600 and Orbitrap elite/LTQ-Orbitrap Velos/Q exactive mass spectrometers.&quot; <i>J Proteome Res</i> <b>12</b>(10):4351&ndash;65; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24004147 24004147]; doi: [https://dx.doi.org/10.1021/pr400307u 10.1021/pr400307u]; GPMDB: [http://gpmdb.org/data/keyword/24004147 149].
#Jones KA, Kim PD, Patel BB, Kelsen SG, Braverman A, Swinton DJ, Gafken PR, Jones LA, Lane WS, Neveu JM, Leung HC, Shaffer SA, Leszyk JD, Stanley BA, Fox TE, Stanley A, Hall MJ, Hampel H, South CD, de la Chapelle A, Burt RW, Jones DA, Kopelovich L, Yeung AT,  (2013) &quot;Immunodepletion plasma proteomics by tripleTOF 5600 and Orbitrap elite/LTQ-Orbitrap Velos/Q exactive mass spectrometers.&quot; <i>J Proteome Res</i> <b>12</b>(10):4351&ndash;65; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24004147 24004147]; doi: [https://dx.doi.org/10.1021/pr400307u 10.1021/pr400307u]; GPMDB: [http://gpmdb.org/data/keyword/24004147 149].
#Salmon CR, Tomazela DM, Ruiz KG, Foster BL, Paes Leme AF, Sallum EA, Somerman MJ, Nociti FH Jr,  (2013) &quot;Proteomic analysis of human dental cementum and alveolar bone.&quot; <i>J Proteomics</i> <b>91</b>:544&ndash;55; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24007660 24007660]; doi: [https://dx.doi.org/10.1016/j.jprot.2013.08.016 10.1016/j.jprot.2013.08.016]; GPMDB: [http://gpmdb.org/data/keyword/24007660 42].
#Salmon CR, Tomazela DM, Ruiz KG, Foster BL, Paes Leme AF, Sallum EA, Somerman MJ, Nociti FH Jr,  (2013) &quot;Proteomic analysis of human dental cementum and alveolar bone.&quot; <i>J Proteomics</i> <b>91</b>:544&ndash;55; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24007660 24007660]; doi: [https://dx.doi.org/10.1016/j.jprot.2013.08.016 10.1016/j.jprot.2013.08.016]; GPMDB: [http://gpmdb.org/data/keyword/24007660 42].
-
#Martínez-Fábregas J, Díaz-Moreno I, González-Arzola K, Janocha S, Navarro JA, Hervás M, Bernhardt R, Díaz-Quintana A, De la Rosa ,  (2013) &quot;New Arabidopsis thaliana cytochrome c partners: a look into the elusive role of cytochrome c in programmed cell death in plants.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(12):3666&ndash;76; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24019145 24019145]; doi: [https://dx.doi.org/10.1074/mcp.M113.030692 10.1074/mcp.M113.030692]; GPMDB: [http://gpmdb.org/data/keyword/24019145 8].
+
#Martínez-Fábregas J, Díaz-Moreno I, González-Arzola K, Janocha S, Navarro JA, Hervás M, Bernhardt R, Díaz-Quintana A, De la Rosa MÁ,  (2013) &quot;New Arabidopsis thaliana cytochrome c partners: a look into the elusive role of cytochrome c in programmed cell death in plants.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(12):3666&ndash;76; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24019145 24019145]; doi: [https://dx.doi.org/10.1074/mcp.M113.030692 10.1074/mcp.M113.030692]; GPMDB: [http://gpmdb.org/data/keyword/24019145 8].
#Bai B, Hales CM, Chen PC, Gozal Y, Dammer EB, Fritz JJ, Wang X, Xia Q, Duong DM, Street C, Cantero G, Cheng D, Jones DR, Wu Z, Li Y, Diner I, Heilman CJ, Rees HD, Wu H, Lin L, Szulwach KE, Gearing M, Mufson EJ, Bennett DA, Montine TJ, Seyfried NT, Wingo TS, Sun YE, Jin P, Hanfelt J, Willcock DM, Levey A, Lah JJ, Peng J,  (2013) &quot;U1 small nuclear ribonucleoprotein complex and RNA splicing alterations in Alzheimer's disease.&quot; <i>Proc Natl Acad Sci U S A</i> <b>110</b>(41):16562&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24023061 24023061]; doi: [https://dx.doi.org/10.1073/pnas.1310249110 10.1073/pnas.1310249110]; GPMDB: [http://gpmdb.org/data/keyword/24023061 80].
#Bai B, Hales CM, Chen PC, Gozal Y, Dammer EB, Fritz JJ, Wang X, Xia Q, Duong DM, Street C, Cantero G, Cheng D, Jones DR, Wu Z, Li Y, Diner I, Heilman CJ, Rees HD, Wu H, Lin L, Szulwach KE, Gearing M, Mufson EJ, Bennett DA, Montine TJ, Seyfried NT, Wingo TS, Sun YE, Jin P, Hanfelt J, Willcock DM, Levey A, Lah JJ, Peng J,  (2013) &quot;U1 small nuclear ribonucleoprotein complex and RNA splicing alterations in Alzheimer's disease.&quot; <i>Proc Natl Acad Sci U S A</i> <b>110</b>(41):16562&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24023061 24023061]; doi: [https://dx.doi.org/10.1073/pnas.1310249110 10.1073/pnas.1310249110]; GPMDB: [http://gpmdb.org/data/keyword/24023061 80].
#Kirkwood KJ, Ahmad Y, Larance M, Lamond AI,  (2013) &quot;Characterization of native protein complexes and protein isoform variation using size-fractionation-based quantitative proteomics.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(12):3851&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24043423 24043423]; doi: [https://dx.doi.org/10.1074/mcp.M113.032367 10.1074/mcp.M113.032367]; GPMDB: [http://gpmdb.org/data/keyword/24043423 120].
#Kirkwood KJ, Ahmad Y, Larance M, Lamond AI,  (2013) &quot;Characterization of native protein complexes and protein isoform variation using size-fractionation-based quantitative proteomics.&quot; <i>Mol Cell Proteomics</i> <b>12</b>(12):3851&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24043423 24043423]; doi: [https://dx.doi.org/10.1074/mcp.M113.032367 10.1074/mcp.M113.032367]; GPMDB: [http://gpmdb.org/data/keyword/24043423 120].
-
#Miranda HV, Antelmann H, Hepowit N, Chavarria NE, Krause DJ, Pritz JR, Bäsell K, Becher D, Humbard MA, Brocchieri L, Maupin-Furlow JA,  (2014) &quot;Archaeal ubiquitin-like SAMP3 is isopeptide-linked to proteins via a UbaA-dependent mechanism.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(1):220&ndash;39; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24097257 24097257]; doi: [https://dx.doi.org/10.1074/mcp.M113.029652 10.1074/mcp.M113.029652]; GPMDB: [http://gpmdb.org/data/keyword/24097257 35].
+
#Miranda HV, Antelmann H, Hepowit N, Chavarria NE, Krause DJ, Pritz JR, Bäsell K, Becher D, Humbard MA, Brocchieri L, Maupin-Furlow JA,  (2014) &quot;Archaeal ubiquitin-like SAMP3 is isopeptide-linked to proteins via a UbaA-dependent mechanism.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(1):220&ndash;39; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24097257 24097257]; doi: [https://dx.doi.org/10.1074/mcp.M113.029652 10.1074/mcp.M113.029652]; GPMDB: [http://gpmdb.org/data/keyword/24097257 35].
#Hartmann EM, Armengaud J,  (2014) &quot;Shotgun proteomics suggests involvement of additional enzymes in dioxin degradation by Sphingomonas wittichii RW1.&quot; <i>Environ Microbiol</i> <b>16</b>(1):162&ndash;76; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24118890 24118890]; doi: [https://dx.doi.org/10.1111/1462-2920.12264 10.1111/1462-2920.12264]; GPMDB: [http://gpmdb.org/data/keyword/24118890 84].
#Hartmann EM, Armengaud J,  (2014) &quot;Shotgun proteomics suggests involvement of additional enzymes in dioxin degradation by Sphingomonas wittichii RW1.&quot; <i>Environ Microbiol</i> <b>16</b>(1):162&ndash;76; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24118890 24118890]; doi: [https://dx.doi.org/10.1111/1462-2920.12264 10.1111/1462-2920.12264]; GPMDB: [http://gpmdb.org/data/keyword/24118890 84].
#Puttamallesh VN, Sreenivasamurthy SK, Singh PK, Harsha HC, Ganjiwale A, Broor S, Pandey A, Narayana J, Prasad TS,  (2013) &quot;Proteomic profiling of serum samples from chikungunya-infected patients provides insights into host response.&quot; <i>Clin Proteomics</i> <b>10</b>(1):14; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24124767 24124767]; doi: [https://dx.doi.org/10.1186/1559-0275-10-14 10.1186/1559-0275-10-14]; GPMDB: [http://gpmdb.org/data/keyword/24124767 23].
#Puttamallesh VN, Sreenivasamurthy SK, Singh PK, Harsha HC, Ganjiwale A, Broor S, Pandey A, Narayana J, Prasad TS,  (2013) &quot;Proteomic profiling of serum samples from chikungunya-infected patients provides insights into host response.&quot; <i>Clin Proteomics</i> <b>10</b>(1):14; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24124767 24124767]; doi: [https://dx.doi.org/10.1186/1559-0275-10-14 10.1186/1559-0275-10-14]; GPMDB: [http://gpmdb.org/data/keyword/24124767 23].
#Wang W, Li X, Huang J, Feng L, Dolinta KG, Chen J,  (2014) &quot;Defining the protein-protein interaction network of the human hippo pathway.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(1):119&ndash;31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24126142 24126142]; doi: [https://dx.doi.org/10.1074/mcp.M113.030049 10.1074/mcp.M113.030049]; GPMDB: [http://gpmdb.org/data/keyword/24126142 66].
#Wang W, Li X, Huang J, Feng L, Dolinta KG, Chen J,  (2014) &quot;Defining the protein-protein interaction network of the human hippo pathway.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(1):119&ndash;31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24126142 24126142]; doi: [https://dx.doi.org/10.1074/mcp.M113.030049 10.1074/mcp.M113.030049]; GPMDB: [http://gpmdb.org/data/keyword/24126142 66].
#Khan Z, Ford MJ, Cusanovich DA, Mitrano A, Pritchard JK, Gilad Y,  (2013) &quot;Primate transcript and protein expression levels evolve under compensatory selection pressures.&quot; <i>Science</i> <b>342</b>(6162):1100&ndash;4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24136357 24136357]; doi: [https://dx.doi.org/10.1126/science.1242379 10.1126/science.1242379]; GPMDB: [http://gpmdb.org/data/keyword/24136357 173].
#Khan Z, Ford MJ, Cusanovich DA, Mitrano A, Pritchard JK, Gilad Y,  (2013) &quot;Primate transcript and protein expression levels evolve under compensatory selection pressures.&quot; <i>Science</i> <b>342</b>(6162):1100&ndash;4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24136357 24136357]; doi: [https://dx.doi.org/10.1126/science.1242379 10.1126/science.1242379]; GPMDB: [http://gpmdb.org/data/keyword/24136357 173].
-
#Segura V, Medina-Aunon JA, Mora MI, Martínez-Bartolomé S, Abian J, Aloria K, Antúnez O, Arizmendi JM, Azkargorta M, Barceló-Batllori S, Beaskoetxea J, Bech-Serra JJ, Blanco F, Monteiro MB, Cáceres D, Canals F, Carrascal M, Casal JI, Clemente F, Colomé N, Dasilva N, Díaz P, Elortza F, Fernández-Puente P, Fuentes M, Gallardo O, Gharbi SI, Gil C, González-Tejedo C, Hernáez ML, Lombardía M, Lopez-Lucendo M, Marcilla M, Mato JM, Mendes M, Oliveira E, Orera I, Pascual-Montano A, Prieto G, Ruiz-Romero C, Sánchez del Pino MM, Tabas-Madrid D, Valero ML, Vialas V, Villanueva J, Albar JP, Corrales FJ,  (2014) &quot;Surfing transcriptomic landscapes. A step beyond the annotation of chromosome 16 proteome.&quot; <i>J Proteome Res</i> <b>13</b>(1):158&ndash;72; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24138474 24138474]; doi: [https://dx.doi.org/10.1021/pr400721r 10.1021/pr400721r]; GPMDB: [http://gpmdb.org/data/keyword/24138474 106].
+
#Segura V, Medina-Aunon JA, Mora MI, Martínez-Bartolomé S, Abian J, Aloria K, Antúnez O, Arizmendi JM, Azkargorta M, Barceló-Batllori S, Beaskoetxea J, Bech-Serra JJ, Blanco F, Monteiro MB, Cáceres D, Canals F, Carrascal M, Casal JI, Clemente F, Colomé N, Dasilva N, Díaz P, Elortza F, Fernández-Puente P, Fuentes M, Gallardo O, Gharbi SI, Gil C, González-Tejedo C, Hernáez ML, Lombardía M, Lopez-Lucendo M, Marcilla M, Mato JM, Mendes M, Oliveira E, Orera I, Pascual-Montano A, Prieto G, Ruiz-Romero C, Sánchez del Pino MM, Tabas-Madrid D, Valero ML, Vialas V, Villanueva J, Albar JP, Corrales FJ,  (2014) &quot;Surfing transcriptomic landscapes. A step beyond the annotation of chromosome 16 proteome.&quot; <i>J Proteome Res</i> <b>13</b>(1):158&ndash;72; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24138474 24138474]; doi: [https://dx.doi.org/10.1021/pr400721r 10.1021/pr400721r]; GPMDB: [http://gpmdb.org/data/keyword/24138474 106].
#Hebert AS, Richards AL, Bailey DJ, Ulbrich A, Coughlin EE, Westphall MS, Coon JJ,  (2014) &quot;The one hour yeast proteome.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(1):339&ndash;47; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24143002 24143002]; doi: [https://dx.doi.org/10.1074/mcp.M113.034769 10.1074/mcp.M113.034769]; GPMDB: [http://gpmdb.org/data/keyword/24143002 7].
#Hebert AS, Richards AL, Bailey DJ, Ulbrich A, Coughlin EE, Westphall MS, Coon JJ,  (2014) &quot;The one hour yeast proteome.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(1):339&ndash;47; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24143002 24143002]; doi: [https://dx.doi.org/10.1074/mcp.M113.034769 10.1074/mcp.M113.034769]; GPMDB: [http://gpmdb.org/data/keyword/24143002 7].
#Gorbachev AY, Fisunov GY, Izraelson M, Evsyutina DV, Mazin PV, Alexeev DG, Pobeguts OV, Gorshkova TN, Kovalchuk SI, Kamashev DE, Govorun VM,  (2013) &quot;DNA repair in Mycoplasma gallisepticum.&quot; <i>BMC Genomics</i> <b>14</b>:726; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24148612 24148612]; doi: [https://dx.doi.org/10.1186/1471-2164-14-726 10.1186/1471-2164-14-726]; GPMDB: [http://gpmdb.org/data/keyword/24148612 1].
#Gorbachev AY, Fisunov GY, Izraelson M, Evsyutina DV, Mazin PV, Alexeev DG, Pobeguts OV, Gorshkova TN, Kovalchuk SI, Kamashev DE, Govorun VM,  (2013) &quot;DNA repair in Mycoplasma gallisepticum.&quot; <i>BMC Genomics</i> <b>14</b>:726; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24148612 24148612]; doi: [https://dx.doi.org/10.1186/1471-2164-14-726 10.1186/1471-2164-14-726]; GPMDB: [http://gpmdb.org/data/keyword/24148612 1].
#McKnight H, Kelsey WP, Hooper DA, Hart TC, Mariotti A,  (2014) &quot;Proteomic analyses of human gingival and periodontal ligament fibroblasts.&quot; <i>J Periodontol</i> <b>85</b>(6):810&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24171499 24171499]; doi: [https://dx.doi.org/10.1902/jop.2013.130161 10.1902/jop.2013.130161]; GPMDB: [http://gpmdb.org/data/keyword/24171499 8].
#McKnight H, Kelsey WP, Hooper DA, Hart TC, Mariotti A,  (2014) &quot;Proteomic analyses of human gingival and periodontal ligament fibroblasts.&quot; <i>J Periodontol</i> <b>85</b>(6):810&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24171499 24171499]; doi: [https://dx.doi.org/10.1902/jop.2013.130161 10.1902/jop.2013.130161]; GPMDB: [http://gpmdb.org/data/keyword/24171499 8].
-
#English JA, Harauma A, Föcking M, Wynne K, Scaife C, Cagney G, Moriguchi T, Cotter DR,  (2013) &quot;Omega-3 fatty acid deficiency disrupts endocytosis, neuritogenesis, and mitochondrial protein pathways in the mouse hippocampus.&quot; <i>Front Genet</i> <b>4</b>:208; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24194745 24194745]; doi: [https://dx.doi.org/10.3389/fgene.2013.00208 10.3389/fgene.2013.00208]; GPMDB: [http://gpmdb.org/data/keyword/24194745 48].
+
#English JA, Harauma A, Föcking M, Wynne K, Scaife C, Cagney G, Moriguchi T, Cotter DR,  (2013) &quot;Omega-3 fatty acid deficiency disrupts endocytosis, neuritogenesis, and mitochondrial protein pathways in the mouse hippocampus.&quot; <i>Front Genet</i> <b>4</b>:208; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24194745 24194745]; doi: [https://dx.doi.org/10.3389/fgene.2013.00208 10.3389/fgene.2013.00208]; GPMDB: [http://gpmdb.org/data/keyword/24194745 48].
#Fujita T, Asano Y, Ohtsuka J, Takada Y, Saito K, Ohki R, Fujii H,  (2013) &quot;Identification of telomere-associated molecules by engineered DNA-binding molecule-mediated chromatin immunoprecipitation (enChIP).&quot; <i>Sci Rep</i> <b>3</b>:3171; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24201379 24201379]; doi: [https://dx.doi.org/10.1038/srep03171 10.1038/srep03171]; GPMDB: [http://gpmdb.org/data/keyword/24201379 30].
#Fujita T, Asano Y, Ohtsuka J, Takada Y, Saito K, Ohki R, Fujii H,  (2013) &quot;Identification of telomere-associated molecules by engineered DNA-binding molecule-mediated chromatin immunoprecipitation (enChIP).&quot; <i>Sci Rep</i> <b>3</b>:3171; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24201379 24201379]; doi: [https://dx.doi.org/10.1038/srep03171 10.1038/srep03171]; GPMDB: [http://gpmdb.org/data/keyword/24201379 30].
-
#Salek M, McGowan S, Trudgian DC, Dushek O, de Wet B, Efstathiou G, Acuto O,  (2013) &quot;Quantitative phosphoproteome analysis unveils LAT as a modulator of CD3ζ and ZAP-70 tyrosine phosphorylation.&quot; <i>PLoS One</i> <b>8</b>(10):e77423; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24204825 24204825]; doi: [https://dx.doi.org/10.1371/journal.pone.0077423 10.1371/journal.pone.0077423]; GPMDB: [http://gpmdb.org/data/keyword/24204825 162].
+
#Salek M, McGowan S, Trudgian DC, Dushek O, de Wet B, Efstathiou G, Acuto O,  (2013) &quot;Quantitative phosphoproteome analysis unveils LAT as a modulator of CD3ζ and ZAP-70 tyrosine phosphorylation.&quot; <i>PLoS One</i> <b>8</b>(10):e77423; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24204825 24204825]; doi: [https://dx.doi.org/10.1371/journal.pone.0077423 10.1371/journal.pone.0077423]; GPMDB: [http://gpmdb.org/data/keyword/24204825 162].
-
#Sandberg A, Branca RM, Lehtiö J, Forshed J,  (2014) &quot;Quantitative accuracy in mass spectrometry based proteomics of complex samples: the impact of labeling and precursor interference.&quot; <i>J Proteomics</i> <b>96</b>:133&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24211767 24211767]; doi: [https://dx.doi.org/10.1016/j.jprot.2013.10.035 10.1016/j.jprot.2013.10.035]; GPMDB: [http://gpmdb.org/data/keyword/24211767 27].
+
#Sandberg A, Branca RM, Lehtiö J, Forshed J,  (2014) &quot;Quantitative accuracy in mass spectrometry based proteomics of complex samples: the impact of labeling and precursor interference.&quot; <i>J Proteomics</i> <b>96</b>:133&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24211767 24211767]; doi: [https://dx.doi.org/10.1016/j.jprot.2013.10.035 10.1016/j.jprot.2013.10.035]; GPMDB: [http://gpmdb.org/data/keyword/24211767 27].
#Caruthers NJ, Stemmer PM, Shin N, Dombkowski A, Caruso JA, Gill R, Rosenspire A,  (2014) &quot;Mercury alters B-cell protein phosphorylation profiles.&quot; <i>J Proteome Res</i> <b>13</b>(2):496&ndash;505; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24224561 24224561]; doi: [https://dx.doi.org/10.1021/pr400657k 10.1021/pr400657k]; GPMDB: [http://gpmdb.org/data/keyword/24224561 21].
#Caruthers NJ, Stemmer PM, Shin N, Dombkowski A, Caruso JA, Gill R, Rosenspire A,  (2014) &quot;Mercury alters B-cell protein phosphorylation profiles.&quot; <i>J Proteome Res</i> <b>13</b>(2):496&ndash;505; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24224561 24224561]; doi: [https://dx.doi.org/10.1021/pr400657k 10.1021/pr400657k]; GPMDB: [http://gpmdb.org/data/keyword/24224561 21].
-
#Sancak Y, Markhard AL, Kitami T, Kovács-Bogdán E, Kamer KJ, Udeshi ND, Carr SA, Chaudhuri D, Clapham DE, Li AA, Calvo SE, Goldberger O, Mootha VK,  (2013) &quot;EMRE is an essential component of the mitochondrial calcium uniporter complex.&quot; <i>Science</i> <b>342</b>(6164):1379&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24231807 24231807]; doi: [https://dx.doi.org/10.1126/science.1242993 10.1126/science.1242993]; GPMDB: [http://gpmdb.org/data/keyword/24231807 7].
+
#Sancak Y, Markhard AL, Kitami T, Kovács-Bogdán E, Kamer KJ, Udeshi ND, Carr SA, Chaudhuri D, Clapham DE, Li AA, Calvo SE, Goldberger O, Mootha VK,  (2013) &quot;EMRE is an essential component of the mitochondrial calcium uniporter complex.&quot; <i>Science</i> <b>342</b>(6164):1379&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24231807 24231807]; doi: [https://dx.doi.org/10.1126/science.1242993 10.1126/science.1242993]; GPMDB: [http://gpmdb.org/data/keyword/24231807 7].
#Thomae AW, Schade GO, Padeken J, Borath M, Vetter I, Kremmer E, Heun P, Imhof A,  (2013) &quot;A pair of centromeric proteins mediates reproductive isolation in Drosophila species.&quot; <i>Dev Cell</i> <b>27</b>(4):412&ndash;24; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24239514 24239514]; doi: [https://dx.doi.org/10.1016/j.devcel.2013.10.001 10.1016/j.devcel.2013.10.001]; GPMDB: [http://gpmdb.org/data/keyword/24239514 51].
#Thomae AW, Schade GO, Padeken J, Borath M, Vetter I, Kremmer E, Heun P, Imhof A,  (2013) &quot;A pair of centromeric proteins mediates reproductive isolation in Drosophila species.&quot; <i>Dev Cell</i> <b>27</b>(4):412&ndash;24; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24239514 24239514]; doi: [https://dx.doi.org/10.1016/j.devcel.2013.10.001 10.1016/j.devcel.2013.10.001]; GPMDB: [http://gpmdb.org/data/keyword/24239514 51].
-
#Branca RM, Orre LM, Johansson HJ, Granholm V, Huss M, Pérez-Bercoff Å, Forshed J, Käll L, Lehtiö J,  (2014) &quot;HiRIEF LC-MS enables deep proteome coverage and unbiased proteogenomics.&quot; <i>Nat Methods</i> <b>11</b>(1):59&ndash;62; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24240322 24240322]; doi: [https://dx.doi.org/10.1038/nmeth.2732 10.1038/nmeth.2732]; GPMDB: [http://gpmdb.org/data/keyword/24240322 2592].
+
#Branca RM, Orre LM, Johansson HJ, Granholm V, Huss M, Pérez-Bercoff Ã…, Forshed J, Käll L, Lehtiö J,  (2014) &quot;HiRIEF LC-MS enables deep proteome coverage and unbiased proteogenomics.&quot; <i>Nat Methods</i> <b>11</b>(1):59&ndash;62; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24240322 24240322]; doi: [https://dx.doi.org/10.1038/nmeth.2732 10.1038/nmeth.2732]; GPMDB: [http://gpmdb.org/data/keyword/24240322 2592].
#Drake JM, Graham NA, Lee JK, Stoyanova T, Faltermeier CM, Sud S, Titz B, Huang J, Pienta KJ, Graeber TG, Witte ON,  (2013) &quot;Metastatic castration-resistant prostate cancer reveals intrapatient similarity and interpatient heterogeneity of therapeutic kinase targets.&quot; <i>Proc Natl Acad Sci U S A</i> <b>110</b>(49):E4762&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24248375 24248375]; doi: [https://dx.doi.org/10.1073/pnas.1319948110 10.1073/pnas.1319948110]; GPMDB: [http://gpmdb.org/data/keyword/24248375 87].
#Drake JM, Graham NA, Lee JK, Stoyanova T, Faltermeier CM, Sud S, Titz B, Huang J, Pienta KJ, Graeber TG, Witte ON,  (2013) &quot;Metastatic castration-resistant prostate cancer reveals intrapatient similarity and interpatient heterogeneity of therapeutic kinase targets.&quot; <i>Proc Natl Acad Sci U S A</i> <b>110</b>(49):E4762&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24248375 24248375]; doi: [https://dx.doi.org/10.1073/pnas.1319948110 10.1073/pnas.1319948110]; GPMDB: [http://gpmdb.org/data/keyword/24248375 87].
#Chang C, Li L, Zhang C, Wu S, Guo K, Zi J, Chen Z, Jiang J, Ma J, Yu Q, Fan F, Qin P, Han M, Su N, Chen T, Wang K, Zhai L, Zhang T, Ying W, Xu Z, Zhang Y, Liu Y, Liu X, Zhong F, Shen H, Wang Q, Hou G, Zhao H, Li G, Liu S, Gu W, Wang G, Wang T, Zhang G, Qian X, Li N, He QY, Lin L, Yang P, Zhu Y, He F, Xu P,  (2014) &quot;Systematic analyses of the transcriptome, translatome, and proteome provide a global view and potential strategy for the C-HPP.&quot; <i>J Proteome Res</i> <b>13</b>(1):38&ndash;49; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24256510 24256510]; doi: [https://dx.doi.org/10.1021/pr4009018 10.1021/pr4009018]; GPMDB: [http://gpmdb.org/data/keyword/24256510 216].
#Chang C, Li L, Zhang C, Wu S, Guo K, Zi J, Chen Z, Jiang J, Ma J, Yu Q, Fan F, Qin P, Han M, Su N, Chen T, Wang K, Zhai L, Zhang T, Ying W, Xu Z, Zhang Y, Liu Y, Liu X, Zhong F, Shen H, Wang Q, Hou G, Zhao H, Li G, Liu S, Gu W, Wang G, Wang T, Zhang G, Qian X, Li N, He QY, Lin L, Yang P, Zhu Y, He F, Xu P,  (2014) &quot;Systematic analyses of the transcriptome, translatome, and proteome provide a global view and potential strategy for the C-HPP.&quot; <i>J Proteome Res</i> <b>13</b>(1):38&ndash;49; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24256510 24256510]; doi: [https://dx.doi.org/10.1021/pr4009018 10.1021/pr4009018]; GPMDB: [http://gpmdb.org/data/keyword/24256510 216].
#Dagley LF, White CA, Liao Y, Shi W, Smyth GK, Orian JM, Emili A, Purcell AW,  (2014) &quot;Quantitative proteomic profiling reveals novel region-specific markers in the adult mouse brain.&quot; <i>Proteomics</i> <b>14</b>(2-3):241&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24259518 24259518]; doi: [https://dx.doi.org/10.1002/pmic.201300196 10.1002/pmic.201300196]; GPMDB: [http://gpmdb.org/data/keyword/24259518 56].
#Dagley LF, White CA, Liao Y, Shi W, Smyth GK, Orian JM, Emili A, Purcell AW,  (2014) &quot;Quantitative proteomic profiling reveals novel region-specific markers in the adult mouse brain.&quot; <i>Proteomics</i> <b>14</b>(2-3):241&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24259518 24259518]; doi: [https://dx.doi.org/10.1002/pmic.201300196 10.1002/pmic.201300196]; GPMDB: [http://gpmdb.org/data/keyword/24259518 56].
#Xing X, Zhang C, Li N, Zhai L, Zhu Y, Yang X, Xu P,  (2014) &quot;Qualitative and quantitative analysis of the adult Drosophila melanogaster proteome.&quot; <i>Proteomics</i> <b>14</b>(2-3):286&ndash;90; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24259522 24259522]; doi: [https://dx.doi.org/10.1002/pmic.201300121 10.1002/pmic.201300121]; GPMDB: [http://gpmdb.org/data/keyword/24259522 125].
#Xing X, Zhang C, Li N, Zhai L, Zhu Y, Yang X, Xu P,  (2014) &quot;Qualitative and quantitative analysis of the adult Drosophila melanogaster proteome.&quot; <i>Proteomics</i> <b>14</b>(2-3):286&ndash;90; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24259522 24259522]; doi: [https://dx.doi.org/10.1002/pmic.201300121 10.1002/pmic.201300121]; GPMDB: [http://gpmdb.org/data/keyword/24259522 125].
-
#Lichti CF, Liu H, Shavkunov AS, Mostovenko E, Sulman EP, Ezhilarasan R, Wang Q, Kroes RA, Moskal JC, Fenyö D, Oksuz BA, Conrad CA, Lang FF, Berven FS, Végvári A, Rezeli M, Marko-Varga G, Hober S, Nilsson CL,  (2014) &quot;Integrated chromosome 19 transcriptomic and proteomic data sets derived from glioma cancer stem-cell lines.&quot; <i>J Proteome Res</i> <b>13</b>(1):191&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24266786 24266786]; doi: [https://dx.doi.org/10.1021/pr400786s 10.1021/pr400786s]; GPMDB: [http://gpmdb.org/data/keyword/24266786 66].
+
#Lichti CF, Liu H, Shavkunov AS, Mostovenko E, Sulman EP, Ezhilarasan R, Wang Q, Kroes RA, Moskal JC, Fenyö D, Oksuz BA, Conrad CA, Lang FF, Berven FS, Végvári A, Rezeli M, Marko-Varga G, Hober S, Nilsson CL,  (2014) &quot;Integrated chromosome 19 transcriptomic and proteomic data sets derived from glioma cancer stem-cell lines.&quot; <i>J Proteome Res</i> <b>13</b>(1):191&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24266786 24266786]; doi: [https://dx.doi.org/10.1021/pr400786s 10.1021/pr400786s]; GPMDB: [http://gpmdb.org/data/keyword/24266786 66].
#Grolimund L, Aeby E, Hamelin R, Armand F, Chiappe D, Moniatte M, Lingner J,  (2013) &quot;A quantitative telomeric chromatin isolation protocol identifies different telomeric states.&quot; <i>Nat Commun</i> <b>4</b>:2848; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24270157 24270157]; doi: [https://dx.doi.org/10.1038/ncomms3848 10.1038/ncomms3848]; GPMDB: [http://gpmdb.org/data/keyword/24270157 177].
#Grolimund L, Aeby E, Hamelin R, Armand F, Chiappe D, Moniatte M, Lingner J,  (2013) &quot;A quantitative telomeric chromatin isolation protocol identifies different telomeric states.&quot; <i>Nat Commun</i> <b>4</b>:2848; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24270157 24270157]; doi: [https://dx.doi.org/10.1038/ncomms3848 10.1038/ncomms3848]; GPMDB: [http://gpmdb.org/data/keyword/24270157 177].
#Martins-de-Souza D, Carvalho PC, Schmitt A, Junqueira M, Nogueira FC, Turck CW, Domont GB,  (2014) &quot;Deciphering the human brain proteome: characterization of the anterior temporal lobe and corpus callosum as part of the Chromosome 15-centric Human Proteome Project.&quot; <i>J Proteome Res</i> <b>13</b>(1):147&ndash;57; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24274931 24274931]; doi: [https://dx.doi.org/10.1021/pr4009157 10.1021/pr4009157]; GPMDB: [http://gpmdb.org/data/keyword/24274931 80].
#Martins-de-Souza D, Carvalho PC, Schmitt A, Junqueira M, Nogueira FC, Turck CW, Domont GB,  (2014) &quot;Deciphering the human brain proteome: characterization of the anterior temporal lobe and corpus callosum as part of the Chromosome 15-centric Human Proteome Project.&quot; <i>J Proteome Res</i> <b>13</b>(1):147&ndash;57; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24274931 24274931]; doi: [https://dx.doi.org/10.1021/pr4009157 10.1021/pr4009157]; GPMDB: [http://gpmdb.org/data/keyword/24274931 80].
#Schlage P, Egli FE, Nanni P, Wang LW, Kizhakkedathu JN, Apte SS, auf dem Keller U,  (2014) &quot;Time-resolved analysis of the matrix metalloproteinase 10 substrate degradome.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(2):580&ndash;93; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24281761 24281761]; doi: [https://dx.doi.org/10.1074/mcp.M113.035139 10.1074/mcp.M113.035139]; GPMDB: [http://gpmdb.org/data/keyword/24281761 34].
#Schlage P, Egli FE, Nanni P, Wang LW, Kizhakkedathu JN, Apte SS, auf dem Keller U,  (2014) &quot;Time-resolved analysis of the matrix metalloproteinase 10 substrate degradome.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(2):580&ndash;93; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24281761 24281761]; doi: [https://dx.doi.org/10.1074/mcp.M113.035139 10.1074/mcp.M113.035139]; GPMDB: [http://gpmdb.org/data/keyword/24281761 34].
#Aquino PF, Lima DB, de Saldanha da Gama Fischer J, Melani RD, Nogueira FC, Chalub SR, Soares ER, Barbosa VC, Domont GB, Carvalho PC,  (2014) &quot;Exploring the proteomic landscape of a gastric cancer biopsy with the shotgun imaging analyzer.&quot; <i>J Proteome Res</i> <b>13</b>(1):314&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24283986 24283986]; doi: [https://dx.doi.org/10.1021/pr400919k 10.1021/pr400919k]; GPMDB: [http://gpmdb.org/data/keyword/24283986 152].
#Aquino PF, Lima DB, de Saldanha da Gama Fischer J, Melani RD, Nogueira FC, Chalub SR, Soares ER, Barbosa VC, Domont GB, Carvalho PC,  (2014) &quot;Exploring the proteomic landscape of a gastric cancer biopsy with the shotgun imaging analyzer.&quot; <i>J Proteome Res</i> <b>13</b>(1):314&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24283986 24283986]; doi: [https://dx.doi.org/10.1021/pr400919k 10.1021/pr400919k]; GPMDB: [http://gpmdb.org/data/keyword/24283986 152].
-
#Jüschke C, Dohnal I, Pichler P, Harzer H, Swart R, Ammerer G, Mechtler K, Knoblich JA,  (2013) &quot;Transcriptome and proteome quantification of a tumor model provides novel insights into post-transcriptional gene regulation.&quot; <i>Genome Biol</i> <b>14</b>(11):r133; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24289286 24289286]; doi: [https://dx.doi.org/10.1186/gb-2013-14-11-r133 10.1186/gb-2013-14-11-r133]; GPMDB: [http://gpmdb.org/data/keyword/24289286 203].
+
#Jüschke C, Dohnal I, Pichler P, Harzer H, Swart R, Ammerer G, Mechtler K, Knoblich JA,  (2013) &quot;Transcriptome and proteome quantification of a tumor model provides novel insights into post-transcriptional gene regulation.&quot; <i>Genome Biol</i> <b>14</b>(11):r133; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24289286 24289286]; doi: [https://dx.doi.org/10.1186/gb-2013-14-11-r133 10.1186/gb-2013-14-11-r133]; GPMDB: [http://gpmdb.org/data/keyword/24289286 203].
#Wang C, Weerapana E, Blewett MM, Cravatt BF,  (2014) &quot;A chemoproteomic platform to quantitatively map targets of lipid-derived electrophiles.&quot; <i>Nat Methods</i> <b>11</b>(1):79&ndash;85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24292485 24292485]; doi: [https://dx.doi.org/10.1038/nmeth.2759 10.1038/nmeth.2759]; GPMDB: [http://gpmdb.org/data/keyword/24292485 180].
#Wang C, Weerapana E, Blewett MM, Cravatt BF,  (2014) &quot;A chemoproteomic platform to quantitatively map targets of lipid-derived electrophiles.&quot; <i>Nat Methods</i> <b>11</b>(1):79&ndash;85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24292485 24292485]; doi: [https://dx.doi.org/10.1038/nmeth.2759 10.1038/nmeth.2759]; GPMDB: [http://gpmdb.org/data/keyword/24292485 180].
-
#Krönke J, Udeshi ND, Narla A, Grauman P, Hurst SN, McConkey M, Svinkina T, Heckl D, Comer E, Li X, Ciarlo C, Hartman E, Munshi N, Schenone M, Schreiber SL, Carr SA, Ebert BL,  (2014) &quot;Lenalidomide causes selective degradation of IKZF1 and IKZF3 in multiple myeloma cells.&quot; <i>Science</i> <b>343</b>(6168):301&ndash;5; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24292625 24292625]; doi: [https://dx.doi.org/10.1126/science.1244851 10.1126/science.1244851]; GPMDB: [http://gpmdb.org/data/keyword/24292625 90].
+
#Krönke J, Udeshi ND, Narla A, Grauman P, Hurst SN, McConkey M, Svinkina T, Heckl D, Comer E, Li X, Ciarlo C, Hartman E, Munshi N, Schenone M, Schreiber SL, Carr SA, Ebert BL,  (2014) &quot;Lenalidomide causes selective degradation of IKZF1 and IKZF3 in multiple myeloma cells.&quot; <i>Science</i> <b>343</b>(6168):301&ndash;5; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24292625 24292625]; doi: [https://dx.doi.org/10.1126/science.1244851 10.1126/science.1244851]; GPMDB: [http://gpmdb.org/data/keyword/24292625 90].
-
#Poulsen ET, Runager K, Risør MW, Dyrlund TF, Scavenius C, Karring H, Praetorius J, Vorum H, Otzen DE, Klintworth GK, Enghild JJ,  (2014) &quot;Comparison of two phenotypically distinct lattice corneal dystrophies caused by mutations in the transforming growth factor beta induced (TGFBI) gene.&quot; <i>Proteomics Clin Appl</i> <b>8</b>(3-4):168&ndash;77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24302499 24302499]; doi: [https://dx.doi.org/10.1002/prca.201300058 10.1002/prca.201300058]; GPMDB: [http://gpmdb.org/data/keyword/24302499 10].
+
#Poulsen ET, Runager K, Risør MW, Dyrlund TF, Scavenius C, Karring H, Praetorius J, Vorum H, Otzen DE, Klintworth GK, Enghild JJ,  (2014) &quot;Comparison of two phenotypically distinct lattice corneal dystrophies caused by mutations in the transforming growth factor beta induced (TGFBI) gene.&quot; <i>Proteomics Clin Appl</i> <b>8</b>(3-4):168&ndash;77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24302499 24302499]; doi: [https://dx.doi.org/10.1002/prca.201300058 10.1002/prca.201300058]; GPMDB: [http://gpmdb.org/data/keyword/24302499 10].
#Macleod AK, Zang T, Riches Z, Henderson CJ, Wolf CR, Huang JT,  (2014) &quot;A targeted in vivo SILAC approach for quantification of drug metabolism enzymes: regulation by the constitutive androstane receptor.&quot; <i>J Proteome Res</i> <b>13</b>(2):866&ndash;74; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24303842 24303842]; doi: [https://dx.doi.org/10.1021/pr400897t 10.1021/pr400897t]; GPMDB: [http://gpmdb.org/data/keyword/24303842 44].
#Macleod AK, Zang T, Riches Z, Henderson CJ, Wolf CR, Huang JT,  (2014) &quot;A targeted in vivo SILAC approach for quantification of drug metabolism enzymes: regulation by the constitutive androstane receptor.&quot; <i>J Proteome Res</i> <b>13</b>(2):866&ndash;74; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24303842 24303842]; doi: [https://dx.doi.org/10.1021/pr400897t 10.1021/pr400897t]; GPMDB: [http://gpmdb.org/data/keyword/24303842 44].
-
#Aguilera L, Toloza L, Giménez R, Odena A, Oliveira E, Aguilar J, Badia J, Baldomà L,  (2014) &quot;Proteomic analysis of outer membrane vesicles from the probiotic strain Escherichia coli Nissle 1917.&quot; <i>Proteomics</i> <b>14</b>(2-3):222&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24307187 24307187]; doi: [https://dx.doi.org/10.1002/pmic.201300328 10.1002/pmic.201300328]; GPMDB: [http://gpmdb.org/data/keyword/24307187 44].
+
#Aguilera L, Toloza L, Giménez R, Odena A, Oliveira E, Aguilar J, Badia J, Baldomà L,  (2014) &quot;Proteomic analysis of outer membrane vesicles from the probiotic strain Escherichia coli Nissle 1917.&quot; <i>Proteomics</i> <b>14</b>(2-3):222&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24307187 24307187]; doi: [https://dx.doi.org/10.1002/pmic.201300328 10.1002/pmic.201300328]; GPMDB: [http://gpmdb.org/data/keyword/24307187 44].
-
#de la Tour CB, Passot FM, Toueille M, Mirabella B, Guérin P, Blanchard L, Servant P, de Groot A, Sommer S, Armengaud J,  (2013) &quot;Comparative proteomics reveals key proteins recruited at the nucleoid of Deinococcus after irradiation-induced DNA damage.&quot; <i>Proteomics</i> <b>13</b>(23-24):3457&ndash;69; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24307635 24307635]; doi: [https://dx.doi.org/10.1002/pmic.201300249 10.1002/pmic.201300249]; GPMDB: [http://gpmdb.org/data/keyword/24307635 24].
+
#de la Tour CB, Passot FM, Toueille M, Mirabella B, Guérin P, Blanchard L, Servant P, de Groot A, Sommer S, Armengaud J,  (2013) &quot;Comparative proteomics reveals key proteins recruited at the nucleoid of Deinococcus after irradiation-induced DNA damage.&quot; <i>Proteomics</i> <b>13</b>(23-24):3457&ndash;69; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24307635 24307635]; doi: [https://dx.doi.org/10.1002/pmic.201300249 10.1002/pmic.201300249]; GPMDB: [http://gpmdb.org/data/keyword/24307635 24].
-
#Carlson SM, Moore KE, Green EM, Martín GM, Gozani O,  (2014) &quot;Proteome-wide enrichment of proteins modified by lysine methylation.&quot; <i>Nat Protoc</i> <b>9</b>(1):37&ndash;50; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24309976 24309976]; doi: [https://dx.doi.org/10.1038/nprot.2013.164 10.1038/nprot.2013.164]; GPMDB: [http://gpmdb.org/data/keyword/24309976 8].
+
#Carlson SM, Moore KE, Green EM, Martín GM, Gozani O,  (2014) &quot;Proteome-wide enrichment of proteins modified by lysine methylation.&quot; <i>Nat Protoc</i> <b>9</b>(1):37&ndash;50; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24309976 24309976]; doi: [https://dx.doi.org/10.1038/nprot.2013.164 10.1038/nprot.2013.164]; GPMDB: [http://gpmdb.org/data/keyword/24309976 8].
#Fierro-Monti I, Echeverria P, Racle J, Hernandez C, Picard D, Quadroni M,  (2013) &quot;Dynamic impacts of the inhibition of the molecular chaperone Hsp90 on the T-cell proteome have implications for anti-cancer therapy.&quot; <i>PLoS One</i> <b>8</b>(11):e80425; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24312219 24312219]; doi: [https://dx.doi.org/10.1371/journal.pone.0080425 10.1371/journal.pone.0080425]; GPMDB: [http://gpmdb.org/data/keyword/24312219 293].
#Fierro-Monti I, Echeverria P, Racle J, Hernandez C, Picard D, Quadroni M,  (2013) &quot;Dynamic impacts of the inhibition of the molecular chaperone Hsp90 on the T-cell proteome have implications for anti-cancer therapy.&quot; <i>PLoS One</i> <b>8</b>(11):e80425; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24312219 24312219]; doi: [https://dx.doi.org/10.1371/journal.pone.0080425 10.1371/journal.pone.0080425]; GPMDB: [http://gpmdb.org/data/keyword/24312219 293].
#Bland C, Bellanger L, Armengaud J,  (2014) &quot;Magnetic immunoaffinity enrichment for selective capture and MS/MS analysis of N-terminal-TMPP-labeled peptides.&quot; <i>J Proteome Res</i> <b>13</b>(2):668&ndash;80; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24313271 24313271]; doi: [https://dx.doi.org/10.1021/pr400774z 10.1021/pr400774z]; GPMDB: [http://gpmdb.org/data/keyword/24313271 9].
#Bland C, Bellanger L, Armengaud J,  (2014) &quot;Magnetic immunoaffinity enrichment for selective capture and MS/MS analysis of N-terminal-TMPP-labeled peptides.&quot; <i>J Proteome Res</i> <b>13</b>(2):668&ndash;80; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24313271 24313271]; doi: [https://dx.doi.org/10.1021/pr400774z 10.1021/pr400774z]; GPMDB: [http://gpmdb.org/data/keyword/24313271 9].
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#Robles MS, Cox J, Mann M,  (2014) &quot;In-vivo quantitative proteomics reveals a key contribution of post-transcriptional mechanisms to the circadian regulation of liver metabolism.&quot; <i>PLoS Genet</i> <b>10</b>(1):e1004047; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24391516 24391516]; doi: [https://dx.doi.org/10.1371/journal.pgen.1004047 10.1371/journal.pgen.1004047]; GPMDB: [http://gpmdb.org/data/keyword/24391516 282].
#Robles MS, Cox J, Mann M,  (2014) &quot;In-vivo quantitative proteomics reveals a key contribution of post-transcriptional mechanisms to the circadian regulation of liver metabolism.&quot; <i>PLoS Genet</i> <b>10</b>(1):e1004047; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24391516 24391516]; doi: [https://dx.doi.org/10.1371/journal.pgen.1004047 10.1371/journal.pgen.1004047]; GPMDB: [http://gpmdb.org/data/keyword/24391516 282].
#Faso C, Bischof S, Hehl AB,  (2013) &quot;The proteome landscape of Giardia lamblia encystation.&quot; <i>PLoS One</i> <b>8</b>(12):e83207; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24391747 24391747]; doi: [https://dx.doi.org/10.1371/journal.pone.0083207 10.1371/journal.pone.0083207]; GPMDB: [http://gpmdb.org/data/keyword/24391747 125].
#Faso C, Bischof S, Hehl AB,  (2013) &quot;The proteome landscape of Giardia lamblia encystation.&quot; <i>PLoS One</i> <b>8</b>(12):e83207; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24391747 24391747]; doi: [https://dx.doi.org/10.1371/journal.pone.0083207 10.1371/journal.pone.0083207]; GPMDB: [http://gpmdb.org/data/keyword/24391747 125].
-
#Forterre A, Jalabert A, Berger E, Baudet M, Chikh K, Errazuriz E, De Larichaudy J, Chanon S, Weiss-Gayet M, Hesse AM, Record M, Geloen A, Lefai E, Vidal H, Couté Y, Rome S,  (2014) &quot;Proteomic analysis of C2C12 myoblast and myotube exosome-like vesicles: a new paradigm for myoblast-myotube cross talk?&quot; <i>PLoS One</i> <b>9</b>(1):e84153; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24392111 24392111]; doi: [https://dx.doi.org/10.1371/journal.pone.0084153 10.1371/journal.pone.0084153]; GPMDB: [http://gpmdb.org/data/keyword/24392111 6].
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#Forterre A, Jalabert A, Berger E, Baudet M, Chikh K, Errazuriz E, De Larichaudy J, Chanon S, Weiss-Gayet M, Hesse AM, Record M, Geloen A, Lefai E, Vidal H, Couté Y, Rome S,  (2014) &quot;Proteomic analysis of C2C12 myoblast and myotube exosome-like vesicles: a new paradigm for myoblast-myotube cross talk?&quot; <i>PLoS One</i> <b>9</b>(1):e84153; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24392111 24392111]; doi: [https://dx.doi.org/10.1371/journal.pone.0084153 10.1371/journal.pone.0084153]; GPMDB: [http://gpmdb.org/data/keyword/24392111 6].
#Eichelbaum K, Krijgsveld J,  (2014) &quot;Rapid temporal dynamics of transcription, protein synthesis, and secretion during macrophage activation.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(3):792&ndash;810; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24396086 24396086]; doi: [https://dx.doi.org/10.1074/mcp.M113.030916 10.1074/mcp.M113.030916]; GPMDB: [http://gpmdb.org/data/keyword/24396086 48].
#Eichelbaum K, Krijgsveld J,  (2014) &quot;Rapid temporal dynamics of transcription, protein synthesis, and secretion during macrophage activation.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(3):792&ndash;810; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24396086 24396086]; doi: [https://dx.doi.org/10.1074/mcp.M113.030916 10.1074/mcp.M113.030916]; GPMDB: [http://gpmdb.org/data/keyword/24396086 48].
#Liu NQ, Stingl C, Look MP, Smid M, Braakman RB, De Marchi T, Sieuwerts AM, Span PN, Sweep FC, Linderholm BK, Mangia A, Paradiso A, Dirix LY, Van Laere SJ, Luider TM, Martens JW, Foekens JA, Umar A,  (2014) &quot;Comparative proteome analysis revealing an 11-protein signature for aggressive triple-negative breast cancer.&quot; <i>J Natl Cancer Inst</i> <b>106</b>(2):djt376; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24399849 24399849]; doi: [https://dx.doi.org/10.1093/jnci/djt376 10.1093/jnci/djt376]; GPMDB: [http://gpmdb.org/data/keyword/24399849 126].
#Liu NQ, Stingl C, Look MP, Smid M, Braakman RB, De Marchi T, Sieuwerts AM, Span PN, Sweep FC, Linderholm BK, Mangia A, Paradiso A, Dirix LY, Van Laere SJ, Luider TM, Martens JW, Foekens JA, Umar A,  (2014) &quot;Comparative proteome analysis revealing an 11-protein signature for aggressive triple-negative breast cancer.&quot; <i>J Natl Cancer Inst</i> <b>106</b>(2):djt376; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24399849 24399849]; doi: [https://dx.doi.org/10.1093/jnci/djt376 10.1093/jnci/djt376]; GPMDB: [http://gpmdb.org/data/keyword/24399849 126].
-
#Van Damme P, Støve SI, Glomnes N, Gevaert K, Arnesen T,  (2014) &quot;A Saccharomyces cerevisiae model reveals in vivo functional impairment of the Ogden syndrome N-terminal acetyltransferase NAA10 Ser37Pro mutant.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(8):2031&ndash;41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24408909 24408909]; doi: [https://dx.doi.org/10.1074/mcp.M113.035402 10.1074/mcp.M113.035402]; GPMDB: [http://gpmdb.org/data/keyword/24408909 192].
+
#Van Damme P, Støve SI, Glomnes N, Gevaert K, Arnesen T,  (2014) &quot;A Saccharomyces cerevisiae model reveals in vivo functional impairment of the Ogden syndrome N-terminal acetyltransferase NAA10 Ser37Pro mutant.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(8):2031&ndash;41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24408909 24408909]; doi: [https://dx.doi.org/10.1074/mcp.M113.035402 10.1074/mcp.M113.035402]; GPMDB: [http://gpmdb.org/data/keyword/24408909 192].
#Sinha A, Ignatchenko V, Ignatchenko A, Mejia-Guerrero S, Kislinger T,  (2014) &quot;In-depth proteomic analyses of ovarian cancer cell line exosomes reveals differential enrichment of functional categories compared to the NCI 60 proteome.&quot; <i>Biochem Biophys Res Commun</i> <b>445</b>(4):694&ndash;701; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24434149 24434149]; doi: [https://dx.doi.org/10.1016/j.bbrc.2013.12.070 10.1016/j.bbrc.2013.12.070]; GPMDB: [http://gpmdb.org/data/keyword/24434149 14].
#Sinha A, Ignatchenko V, Ignatchenko A, Mejia-Guerrero S, Kislinger T,  (2014) &quot;In-depth proteomic analyses of ovarian cancer cell line exosomes reveals differential enrichment of functional categories compared to the NCI 60 proteome.&quot; <i>Biochem Biophys Res Commun</i> <b>445</b>(4):694&ndash;701; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24434149 24434149]; doi: [https://dx.doi.org/10.1016/j.bbrc.2013.12.070 10.1016/j.bbrc.2013.12.070]; GPMDB: [http://gpmdb.org/data/keyword/24434149 14].
#Lennon R, Byron A, Humphries JD, Randles MJ, Carisey A, Murphy S, Knight D, Brenchley PE, Zent R, Humphries MJ,  (2014) &quot;Global analysis reveals the complexity of the human glomerular extracellular matrix.&quot; <i>J Am Soc Nephrol</i> <b>25</b>(5):939&ndash;51; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24436468 24436468]; doi: [https://dx.doi.org/10.1681/ASN.2013030233 10.1681/ASN.2013030233]; GPMDB: [http://gpmdb.org/data/keyword/24436468 89].
#Lennon R, Byron A, Humphries JD, Randles MJ, Carisey A, Murphy S, Knight D, Brenchley PE, Zent R, Humphries MJ,  (2014) &quot;Global analysis reveals the complexity of the human glomerular extracellular matrix.&quot; <i>J Am Soc Nephrol</i> <b>25</b>(5):939&ndash;51; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24436468 24436468]; doi: [https://dx.doi.org/10.1681/ASN.2013030233 10.1681/ASN.2013030233]; GPMDB: [http://gpmdb.org/data/keyword/24436468 89].
#Byron A, Randles MJ, Humphries JD, Mironov A, Hamidi H, Harris S, Mathieson PW, Saleem MA, Satchell SC, Zent R, Humphries MJ, Lennon R,  (2014) &quot;Glomerular cell cross-talk influences composition and assembly of extracellular matrix.&quot; <i>J Am Soc Nephrol</i> <b>25</b>(5):953&ndash;66; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24436469 24436469]; doi: [https://dx.doi.org/10.1681/ASN.2013070795 10.1681/ASN.2013070795]; GPMDB: [http://gpmdb.org/data/keyword/24436469 180].
#Byron A, Randles MJ, Humphries JD, Mironov A, Hamidi H, Harris S, Mathieson PW, Saleem MA, Satchell SC, Zent R, Humphries MJ, Lennon R,  (2014) &quot;Glomerular cell cross-talk influences composition and assembly of extracellular matrix.&quot; <i>J Am Soc Nephrol</i> <b>25</b>(5):953&ndash;66; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24436469 24436469]; doi: [https://dx.doi.org/10.1681/ASN.2013070795 10.1681/ASN.2013070795]; GPMDB: [http://gpmdb.org/data/keyword/24436469 180].
-
#Licker V, Turck N, Kövari E, Burkhardt K, Côte M, Surini-Demiri M, Lobrinus JA, Sanchez JC, Burkhard PR,  (2014) &quot;Proteomic analysis of human substantia nigra identifies novel candidates involved in Parkinson's disease pathogenesis.&quot; <i>Proteomics</i> <b>14</b>(6):784&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24449343 24449343]; doi: [https://dx.doi.org/10.1002/pmic.201300342 10.1002/pmic.201300342]; GPMDB: [http://gpmdb.org/data/keyword/24449343 48].
+
#Licker V, Turck N, Kövari E, Burkhardt K, Côte M, Surini-Demiri M, Lobrinus JA, Sanchez JC, Burkhard PR,  (2014) &quot;Proteomic analysis of human substantia nigra identifies novel candidates involved in Parkinson's disease pathogenesis.&quot; <i>Proteomics</i> <b>14</b>(6):784&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24449343 24449343]; doi: [https://dx.doi.org/10.1002/pmic.201300342 10.1002/pmic.201300342]; GPMDB: [http://gpmdb.org/data/keyword/24449343 48].
#Pesciotta EN, Sriswasdi S, Tang HY, Speicher DW, Mason PJ, Bessler M,  (2014) &quot;Dysferlin and other non-red cell proteins accumulate in the red cell membrane of Diamond-Blackfan Anemia patients.&quot; <i>PLoS One</i> <b>9</b>(1):e85504; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24454878 24454878]; doi: [https://dx.doi.org/10.1371/journal.pone.0085504 10.1371/journal.pone.0085504]; GPMDB: [http://gpmdb.org/data/keyword/24454878 346].
#Pesciotta EN, Sriswasdi S, Tang HY, Speicher DW, Mason PJ, Bessler M,  (2014) &quot;Dysferlin and other non-red cell proteins accumulate in the red cell membrane of Diamond-Blackfan Anemia patients.&quot; <i>PLoS One</i> <b>9</b>(1):e85504; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24454878 24454878]; doi: [https://dx.doi.org/10.1371/journal.pone.0085504 10.1371/journal.pone.0085504]; GPMDB: [http://gpmdb.org/data/keyword/24454878 346].
-
#Ferreira R, Vitorino R, Padrão AI, Espadas G, Mancuso FM, Moreira-Gonçalves D, Castro-Sousa G, Henriques-Coelho T, Oliveira PA, Barros AS, Duarte JA, Sabidó E, Amado F,  (2014) &quot;Lifelong exercise training modulates cardiac mitochondrial phosphoproteome in rats.&quot; <i>J Proteome Res</i> <b>13</b>(4):2045&ndash;55; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24467267 24467267]; doi: [https://dx.doi.org/10.1021/pr4011926 10.1021/pr4011926]; GPMDB: [http://gpmdb.org/data/keyword/24467267 20].
+
#Ferreira R, Vitorino R, Padrão AI, Espadas G, Mancuso FM, Moreira-Gonçalves D, Castro-Sousa G, Henriques-Coelho T, Oliveira PA, Barros AS, Duarte JA, Sabidó E, Amado F,  (2014) &quot;Lifelong exercise training modulates cardiac mitochondrial phosphoproteome in rats.&quot; <i>J Proteome Res</i> <b>13</b>(4):2045&ndash;55; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24467267 24467267]; doi: [https://dx.doi.org/10.1021/pr4011926 10.1021/pr4011926]; GPMDB: [http://gpmdb.org/data/keyword/24467267 20].
#Barth J, Bergner SV, Jaeger D, Niehues A, Schulze S, Scholz M, Fufezan C,  (2014) &quot;The interplay of light and oxygen in the reactive oxygen stress response of Chlamydomonas reinhardtii dissected by quantitative mass spectrometry.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(4):969&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24482124 24482124]; doi: [https://dx.doi.org/10.1074/mcp.M113.032771 10.1074/mcp.M113.032771]; GPMDB: [http://gpmdb.org/data/keyword/24482124 198].
#Barth J, Bergner SV, Jaeger D, Niehues A, Schulze S, Scholz M, Fufezan C,  (2014) &quot;The interplay of light and oxygen in the reactive oxygen stress response of Chlamydomonas reinhardtii dissected by quantitative mass spectrometry.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(4):969&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24482124 24482124]; doi: [https://dx.doi.org/10.1074/mcp.M113.032771 10.1074/mcp.M113.032771]; GPMDB: [http://gpmdb.org/data/keyword/24482124 198].
#Kulak NA, Pichler G, Paron I, Nagaraj N, Mann M,  (2014) &quot;Minimal, encapsulated proteomic-sample processing applied to copy-number estimation in eukaryotic cells.&quot; <i>Nat Methods</i> <b>11</b>(3):319&ndash;24; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24487582 24487582]; doi: [https://dx.doi.org/10.1038/nmeth.2834 10.1038/nmeth.2834]; GPMDB: [http://gpmdb.org/data/keyword/24487582 59].
#Kulak NA, Pichler G, Paron I, Nagaraj N, Mann M,  (2014) &quot;Minimal, encapsulated proteomic-sample processing applied to copy-number estimation in eukaryotic cells.&quot; <i>Nat Methods</i> <b>11</b>(3):319&ndash;24; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24487582 24487582]; doi: [https://dx.doi.org/10.1038/nmeth.2834 10.1038/nmeth.2834]; GPMDB: [http://gpmdb.org/data/keyword/24487582 59].
-
#Weinert BT, Iesmantavicius V, Moustafa T, Schölz C, Wagner SA, Magnes C, Zechner R, Choudhary C,  (2014) &quot;Acetylation dynamics and stoichiometry in Saccharomyces cerevisiae.&quot; <i>Mol Syst Biol</i> <b>10</b>:716; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24489116 24489116]; doi: [https://dx.doi.org/10.1002/msb.134766 10.1002/msb.134766]; GPMDB: [http://gpmdb.org/data/keyword/24489116 88].
+
#Weinert BT, Iesmantavicius V, Moustafa T, Schölz C, Wagner SA, Magnes C, Zechner R, Choudhary C,  (2014) &quot;Acetylation dynamics and stoichiometry in Saccharomyces cerevisiae.&quot; <i>Mol Syst Biol</i> <b>10</b>:716; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24489116 24489116]; doi: [https://dx.doi.org/10.1002/msb.134766 10.1002/msb.134766]; GPMDB: [http://gpmdb.org/data/keyword/24489116 88].
-
#Kjellin H, Johansson H, Höög A, Lehtiö J, Jakobsson PJ, Kjellman M,  (2014) &quot;Differentially expressed proteins in malignant and benign adrenocortical tumors.&quot; <i>PLoS One</i> <b>9</b>(2):e87951; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24498411 24498411]; doi: [https://dx.doi.org/10.1371/journal.pone.0087951 10.1371/journal.pone.0087951]; GPMDB: [http://gpmdb.org/data/keyword/24498411 2].
+
#Kjellin H, Johansson H, Höög A, Lehtiö J, Jakobsson PJ, Kjellman M,  (2014) &quot;Differentially expressed proteins in malignant and benign adrenocortical tumors.&quot; <i>PLoS One</i> <b>9</b>(2):e87951; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24498411 24498411]; doi: [https://dx.doi.org/10.1371/journal.pone.0087951 10.1371/journal.pone.0087951]; GPMDB: [http://gpmdb.org/data/keyword/24498411 2].
-
#van den Biggelaar M, Hernández-Fernaud JR, van den Eshof BL, Neilson LJ, Meijer AB, Mertens K, Zanivan S,  (2014) &quot;Quantitative phosphoproteomics unveils temporal dynamics of thrombin signaling in human endothelial cells.&quot; <i>Blood</i> <b>123</b>(12):e22&ndash;36; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24501219 24501219]; doi: [https://dx.doi.org/10.1182/blood-2013-12-546036 10.1182/blood-2013-12-546036]; GPMDB: [http://gpmdb.org/data/keyword/24501219 87].
+
#van den Biggelaar M, Hernández-Fernaud JR, van den Eshof BL, Neilson LJ, Meijer AB, Mertens K, Zanivan S,  (2014) &quot;Quantitative phosphoproteomics unveils temporal dynamics of thrombin signaling in human endothelial cells.&quot; <i>Blood</i> <b>123</b>(12):e22&ndash;36; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24501219 24501219]; doi: [https://dx.doi.org/10.1182/blood-2013-12-546036 10.1182/blood-2013-12-546036]; GPMDB: [http://gpmdb.org/data/keyword/24501219 87].
-
#Eguren M, Álvarez-Fernández M, García F, López-Contreras AJ, Fujimitsu K, Yaguchi H, Luque-García JL, Fernández-Capetillo O, Muñoz J, Yamano H, Malumbres M,  (2014) &quot;A synthetic lethal interaction between APC/C and topoisomerase poisons uncovered by proteomic screens.&quot; <i>Cell Rep</i> <b>6</b>(4):670&ndash;83; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24508461 24508461]; doi: [https://dx.doi.org/10.1016/j.celrep.2014.01.017 10.1016/j.celrep.2014.01.017]; GPMDB: [http://gpmdb.org/data/keyword/24508461 119].
+
#Eguren M, Álvarez-Fernández M, García F, López-Contreras AJ, Fujimitsu K, Yaguchi H, Luque-García JL, Fernández-Capetillo O, Muñoz J, Yamano H, Malumbres M,  (2014) &quot;A synthetic lethal interaction between APC/C and topoisomerase poisons uncovered by proteomic screens.&quot; <i>Cell Rep</i> <b>6</b>(4):670&ndash;83; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24508461 24508461]; doi: [https://dx.doi.org/10.1016/j.celrep.2014.01.017 10.1016/j.celrep.2014.01.017]; GPMDB: [http://gpmdb.org/data/keyword/24508461 119].
#Tao D, King JG, Tweedell RE, Jost PJ, Boddey JA, Dinglasan RR,  (2014) &quot;The acute transcriptomic and proteomic response of HC-04 hepatoma cells to hepatocyte growth factor and its implications for Plasmodium falciparum sporozoite invasion.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(5):1153&ndash;64; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24532842 24532842]; doi: [https://dx.doi.org/10.1074/mcp.M113.035584 10.1074/mcp.M113.035584]; GPMDB: [http://gpmdb.org/data/keyword/24532842 51].
#Tao D, King JG, Tweedell RE, Jost PJ, Boddey JA, Dinglasan RR,  (2014) &quot;The acute transcriptomic and proteomic response of HC-04 hepatoma cells to hepatocyte growth factor and its implications for Plasmodium falciparum sporozoite invasion.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(5):1153&ndash;64; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24532842 24532842]; doi: [https://dx.doi.org/10.1074/mcp.M113.035584 10.1074/mcp.M113.035584]; GPMDB: [http://gpmdb.org/data/keyword/24532842 51].
-
#Kustatscher G, Hégarat N, Wills KL, Furlan C, Bukowski-Wills JC, Hochegger H, Rappsilber J,  (2014) &quot;Proteomics of a fuzzy organelle: interphase chromatin.&quot; <i>EMBO J</i> <b>33</b>(6):648&ndash;64; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24534090 24534090]; doi: [https://dx.doi.org/10.1002/embj.201387614 10.1002/embj.201387614]; GPMDB: [http://gpmdb.org/data/keyword/24534090 519].
+
#Kustatscher G, Hégarat N, Wills KL, Furlan C, Bukowski-Wills JC, Hochegger H, Rappsilber J,  (2014) &quot;Proteomics of a fuzzy organelle: interphase chromatin.&quot; <i>EMBO J</i> <b>33</b>(6):648&ndash;64; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24534090 24534090]; doi: [https://dx.doi.org/10.1002/embj.201387614 10.1002/embj.201387614]; GPMDB: [http://gpmdb.org/data/keyword/24534090 519].
#Bland C, Hartmann EM, Christie-Oleza JA, Fernandez B, Armengaud J,  (2014) &quot;N-Terminal-oriented proteogenomics of the marine bacterium roseobacter denitrificans Och114 using N-Succinimidyloxycarbonylmethyl)tris(2,4,6-trimethoxyphenyl)phosphonium bromide (TMPP) labeling and diagonal chromatography.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(5):1369&ndash;81; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24536027 24536027]; doi: [https://dx.doi.org/10.1074/mcp.O113.032854 10.1074/mcp.O113.032854]; GPMDB: [http://gpmdb.org/data/keyword/24536027 4].
#Bland C, Hartmann EM, Christie-Oleza JA, Fernandez B, Armengaud J,  (2014) &quot;N-Terminal-oriented proteogenomics of the marine bacterium roseobacter denitrificans Och114 using N-Succinimidyloxycarbonylmethyl)tris(2,4,6-trimethoxyphenyl)phosphonium bromide (TMPP) labeling and diagonal chromatography.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(5):1369&ndash;81; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24536027 24536027]; doi: [https://dx.doi.org/10.1074/mcp.O113.032854 10.1074/mcp.O113.032854]; GPMDB: [http://gpmdb.org/data/keyword/24536027 4].
#Zufferey A, Schvartz D, Nolli S, Reny JL, Sanchez JC, Fontana P,  (2014) &quot;Characterization of the platelet granule proteome: evidence of the presence of MHC1 in alpha-granules.&quot; <i>J Proteomics</i> <b>101</b>:130&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24549006 24549006]; doi: [https://dx.doi.org/10.1016/j.jprot.2014.02.008 10.1016/j.jprot.2014.02.008]; GPMDB: [http://gpmdb.org/data/keyword/24549006 8].
#Zufferey A, Schvartz D, Nolli S, Reny JL, Sanchez JC, Fontana P,  (2014) &quot;Characterization of the platelet granule proteome: evidence of the presence of MHC1 in alpha-granules.&quot; <i>J Proteomics</i> <b>101</b>:130&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24549006 24549006]; doi: [https://dx.doi.org/10.1016/j.jprot.2014.02.008 10.1016/j.jprot.2014.02.008]; GPMDB: [http://gpmdb.org/data/keyword/24549006 8].
#Depuydt G, Xie F, Petyuk VA, Smolders A, Brewer HM, Camp DG 2nd, Smith RD, Braeckman BP,  (2014) &quot;LC-MS proteomics analysis of the insulin/IGF-1-deficient Caenorhabditis elegans daf-2(e1370) mutant reveals extensive restructuring of intermediary metabolism.&quot; <i>J Proteome Res</i> <b>13</b>(4):1938&ndash;56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24555535 24555535]; doi: [https://dx.doi.org/10.1021/pr401081b 10.1021/pr401081b]; GPMDB: [http://gpmdb.org/data/keyword/24555535 40].
#Depuydt G, Xie F, Petyuk VA, Smolders A, Brewer HM, Camp DG 2nd, Smith RD, Braeckman BP,  (2014) &quot;LC-MS proteomics analysis of the insulin/IGF-1-deficient Caenorhabditis elegans daf-2(e1370) mutant reveals extensive restructuring of intermediary metabolism.&quot; <i>J Proteome Res</i> <b>13</b>(4):1938&ndash;56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24555535 24555535]; doi: [https://dx.doi.org/10.1021/pr401081b 10.1021/pr401081b]; GPMDB: [http://gpmdb.org/data/keyword/24555535 40].
-
#Lange PF, Huesgen PF, Nguyen K, Overall CM,  (2014) &quot;Annotating N termini for the human proteome project: N termini and -acetylation status differentiate stable cleaved protein species from degradation remnants in the human erythrocyte proteome.&quot; <i>J Proteome Res</i> <b>13</b>(4):2028&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24555563 24555563]; doi: [https://dx.doi.org/10.1021/pr401191w 10.1021/pr401191w]; GPMDB: [http://gpmdb.org/data/keyword/24555563 101].
+
#Lange PF, Huesgen PF, Nguyen K, Overall CM,  (2014) &quot;Annotating N termini for the human proteome project: N termini and Nα-acetylation status differentiate stable cleaved protein species from degradation remnants in the human erythrocyte proteome.&quot; <i>J Proteome Res</i> <b>13</b>(4):2028&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24555563 24555563]; doi: [https://dx.doi.org/10.1021/pr401191w 10.1021/pr401191w]; GPMDB: [http://gpmdb.org/data/keyword/24555563 101].
-
#Plohnke N, Hamann A, Poetsch A, Osiewacz HD, Rögner M, Rexroth S,  (2014) &quot;Proteomic analysis of mitochondria from senescent Podospora anserina casts new light on ROS dependent aging mechanisms.&quot; <i>Exp Gerontol</i> <b>56</b>:13&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24556281 24556281]; doi: [https://dx.doi.org/10.1016/j.exger.2014.02.008 10.1016/j.exger.2014.02.008]; GPMDB: [http://gpmdb.org/data/keyword/24556281 36].
+
#Plohnke N, Hamann A, Poetsch A, Osiewacz HD, Rögner M, Rexroth S,  (2014) &quot;Proteomic analysis of mitochondria from senescent Podospora anserina casts new light on ROS dependent aging mechanisms.&quot; <i>Exp Gerontol</i> <b>56</b>:13&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24556281 24556281]; doi: [https://dx.doi.org/10.1016/j.exger.2014.02.008 10.1016/j.exger.2014.02.008]; GPMDB: [http://gpmdb.org/data/keyword/24556281 36].
-
#Kolinko I, Lohße A, Borg S, Raschdorf O, Jogler C, Tu Q, Pósfai M, Tompa E, Plitzko JM, Brachmann A, Wanner G, Müller R, Zhang Y, Schüler D,  (2014) &quot;Biosynthesis of magnetic nanostructures in a foreign organism by transfer of bacterial magnetosome gene clusters.&quot; <i>Nat Nanotechnol</i> <b>9</b>(3):193&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24561353 24561353]; doi: [https://dx.doi.org/10.1038/nnano.2014.13 10.1038/nnano.2014.13]; GPMDB: [http://gpmdb.org/data/keyword/24561353 1].
+
#Kolinko I, Lohße A, Borg S, Raschdorf O, Jogler C, Tu Q, Pósfai M, Tompa E, Plitzko JM, Brachmann A, Wanner G, Müller R, Zhang Y, Schüler D,  (2014) &quot;Biosynthesis of magnetic nanostructures in a foreign organism by transfer of bacterial magnetosome gene clusters.&quot; <i>Nat Nanotechnol</i> <b>9</b>(3):193&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24561353 24561353]; doi: [https://dx.doi.org/10.1038/nnano.2014.13 10.1038/nnano.2014.13]; GPMDB: [http://gpmdb.org/data/keyword/24561353 1].
#Sigdel TK, Nicora CD, Hsieh SC, Dai H, Qian WJ, Camp DG 2nd, Sarwal MM,  (2014) &quot;Optimization for peptide sample preparation for urine peptidomics.&quot; <i>Clin Proteomics</i> <b>11</b>(1):7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24568099 24568099]; doi: [https://dx.doi.org/10.1186/1559-0275-11-7 10.1186/1559-0275-11-7]; GPMDB: [http://gpmdb.org/data/keyword/24568099 8].
#Sigdel TK, Nicora CD, Hsieh SC, Dai H, Qian WJ, Camp DG 2nd, Sarwal MM,  (2014) &quot;Optimization for peptide sample preparation for urine peptidomics.&quot; <i>Clin Proteomics</i> <b>11</b>(1):7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24568099 24568099]; doi: [https://dx.doi.org/10.1186/1559-0275-11-7 10.1186/1559-0275-11-7]; GPMDB: [http://gpmdb.org/data/keyword/24568099 8].
#Husi H, Van Agtmael T, Mullen W, Bahlmann FH, Schanstra JP, Vlahou A, Delles C, Perco P, Mischak H,  (2014) &quot;Proteome-based systems biology analysis of the diabetic mouse aorta reveals major changes in fatty acid biosynthesis as potential hallmark in diabetes mellitus-associated vascular disease.&quot; <i>Circ Cardiovasc Genet</i> <b>7</b>(2):161&ndash;70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24573165 24573165]; doi: [https://dx.doi.org/10.1161/CIRCGENETICS.113.000196 10.1161/CIRCGENETICS.113.000196]; GPMDB: [http://gpmdb.org/data/keyword/24573165 14].
#Husi H, Van Agtmael T, Mullen W, Bahlmann FH, Schanstra JP, Vlahou A, Delles C, Perco P, Mischak H,  (2014) &quot;Proteome-based systems biology analysis of the diabetic mouse aorta reveals major changes in fatty acid biosynthesis as potential hallmark in diabetes mellitus-associated vascular disease.&quot; <i>Circ Cardiovasc Genet</i> <b>7</b>(2):161&ndash;70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24573165 24573165]; doi: [https://dx.doi.org/10.1161/CIRCGENETICS.113.000196 10.1161/CIRCGENETICS.113.000196]; GPMDB: [http://gpmdb.org/data/keyword/24573165 14].
#Talamantes T, Ughy B, Domonkos I, Kis M, Gombos Z, Prokai L,  (2014) &quot;Label-free LC-MS/MS identification of phosphatidylglycerol-regulated proteins in Synechocystis sp. PCC6803.&quot; <i>Proteomics</i> <b>14</b>(9):1053&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24574175 24574175]; doi: [https://dx.doi.org/10.1002/pmic.201300372 10.1002/pmic.201300372]; GPMDB: [http://gpmdb.org/data/keyword/24574175 30].
#Talamantes T, Ughy B, Domonkos I, Kis M, Gombos Z, Prokai L,  (2014) &quot;Label-free LC-MS/MS identification of phosphatidylglycerol-regulated proteins in Synechocystis sp. PCC6803.&quot; <i>Proteomics</i> <b>14</b>(9):1053&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24574175 24574175]; doi: [https://dx.doi.org/10.1002/pmic.201300372 10.1002/pmic.201300372]; GPMDB: [http://gpmdb.org/data/keyword/24574175 30].
#Benevento M, Di Palma S, Snijder J, Moyer CL, Reddy VS, Nemerow GR, Heck AJ,  (2014) &quot;Adenovirus composition, proteolysis, and disassembly studied by in-depth qualitative and quantitative proteomics.&quot; <i>J Biol Chem</i> <b>289</b>(16):11421&ndash;30; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24591515 24591515]; doi: [https://dx.doi.org/10.1074/jbc.M113.537498 10.1074/jbc.M113.537498]; GPMDB: [http://gpmdb.org/data/keyword/24591515 5].
#Benevento M, Di Palma S, Snijder J, Moyer CL, Reddy VS, Nemerow GR, Heck AJ,  (2014) &quot;Adenovirus composition, proteolysis, and disassembly studied by in-depth qualitative and quantitative proteomics.&quot; <i>J Biol Chem</i> <b>289</b>(16):11421&ndash;30; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24591515 24591515]; doi: [https://dx.doi.org/10.1074/jbc.M113.537498 10.1074/jbc.M113.537498]; GPMDB: [http://gpmdb.org/data/keyword/24591515 5].
-
#Legendre M, Bartoli J, Shmakova L, Jeudy S, Labadie K, Adrait A, Lescot M, Poirot O, Bertaux L, Bruley C, Couté Y, Rivkina E, Abergel C, Claverie JM,  (2014) &quot;Thirty-thousand-year-old distant relative of giant icosahedral DNA viruses with a pandoravirus morphology.&quot; <i>Proc Natl Acad Sci U S A</i> <b>111</b>(11):4274&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24591590 24591590]; doi: [https://dx.doi.org/10.1073/pnas.1320670111 10.1073/pnas.1320670111]; GPMDB: [http://gpmdb.org/data/keyword/24591590 1].
+
#Legendre M, Bartoli J, Shmakova L, Jeudy S, Labadie K, Adrait A, Lescot M, Poirot O, Bertaux L, Bruley C, Couté Y, Rivkina E, Abergel C, Claverie JM,  (2014) &quot;Thirty-thousand-year-old distant relative of giant icosahedral DNA viruses with a pandoravirus morphology.&quot; <i>Proc Natl Acad Sci U S A</i> <b>111</b>(11):4274&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24591590 24591590]; doi: [https://dx.doi.org/10.1073/pnas.1320670111 10.1073/pnas.1320670111]; GPMDB: [http://gpmdb.org/data/keyword/24591590 1].
#Ly T, Ahmad Y, Shlien A, Soroka D, Mills A, Emanuele MJ, Stratton MR, Lamond AI,  (2014) &quot;A proteomic chronology of gene expression through the cell cycle in human myeloid leukemia cells.&quot; <i>Elife</i> <b>3</b>:e01630; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24596151 24596151]; GPMDB: [http://gpmdb.org/data/keyword/24596151 98].
#Ly T, Ahmad Y, Shlien A, Soroka D, Mills A, Emanuele MJ, Stratton MR, Lamond AI,  (2014) &quot;A proteomic chronology of gene expression through the cell cycle in human myeloid leukemia cells.&quot; <i>Elife</i> <b>3</b>:e01630; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24596151 24596151]; GPMDB: [http://gpmdb.org/data/keyword/24596151 98].
#Bailey DJ, McDevitt MT, Westphall MS, Pagliarini DJ, Coon JJ,  (2014) &quot;Intelligent data acquisition blends targeted and discovery methods.&quot; <i>J Proteome Res</i> <b>13</b>(4):2152&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24611583 24611583]; doi: [https://dx.doi.org/10.1021/pr401278j 10.1021/pr401278j]; GPMDB: [http://gpmdb.org/data/keyword/24611583 37].
#Bailey DJ, McDevitt MT, Westphall MS, Pagliarini DJ, Coon JJ,  (2014) &quot;Intelligent data acquisition blends targeted and discovery methods.&quot; <i>J Proteome Res</i> <b>13</b>(4):2152&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24611583 24611583]; doi: [https://dx.doi.org/10.1021/pr401278j 10.1021/pr401278j]; GPMDB: [http://gpmdb.org/data/keyword/24611583 37].
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#Peebo K, Valgepea K, Nahku R, Riis G, Oun M, Adamberg K, Vilu R,  (2014) &quot;Coordinated activation of PTA-ACS and TCA cycles strongly reduces overflow metabolism of acetate in Escherichia coli.&quot; <i>Appl Microbiol Biotechnol</i> <b>98</b>(11):5131&ndash;43; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24633370 24633370]; doi: [https://dx.doi.org/10.1007/s00253-014-5613-y 10.1007/s00253-014-5613-y]; GPMDB: [http://gpmdb.org/data/keyword/24633370 10].
#Peebo K, Valgepea K, Nahku R, Riis G, Oun M, Adamberg K, Vilu R,  (2014) &quot;Coordinated activation of PTA-ACS and TCA cycles strongly reduces overflow metabolism of acetate in Escherichia coli.&quot; <i>Appl Microbiol Biotechnol</i> <b>98</b>(11):5131&ndash;43; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24633370 24633370]; doi: [https://dx.doi.org/10.1007/s00253-014-5613-y 10.1007/s00253-014-5613-y]; GPMDB: [http://gpmdb.org/data/keyword/24633370 10].
#Clark CG, Chong PM, McCorrister SJ, Simon P, Walker M, Lee DM, Nguy K, Cheng K, Gilmour MW, Westmacott GR,  (2014) &quot;The CJIE1 prophage of Campylobacter jejuni affects protein expression in growth media with and without bile salts.&quot; <i>BMC Microbiol</i> <b>14</b>:70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24641125 24641125]; doi: [https://dx.doi.org/10.1186/1471-2180-14-70 10.1186/1471-2180-14-70]; GPMDB: [http://gpmdb.org/data/keyword/24641125 163].
#Clark CG, Chong PM, McCorrister SJ, Simon P, Walker M, Lee DM, Nguy K, Cheng K, Gilmour MW, Westmacott GR,  (2014) &quot;The CJIE1 prophage of Campylobacter jejuni affects protein expression in growth media with and without bile salts.&quot; <i>BMC Microbiol</i> <b>14</b>:70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24641125 24641125]; doi: [https://dx.doi.org/10.1186/1471-2180-14-70 10.1186/1471-2180-14-70]; GPMDB: [http://gpmdb.org/data/keyword/24641125 163].
-
#de Groot RE, Ganji RS, Bernatik O, Lloyd-Lewis B, Seipel K, Šedová K, Zdráhal Z, Dhople VM, Dale TC, Korswagen HC, Bryja V,  (2014) &quot;Huwe1-mediated ubiquitylation of dishevelled defines a negative feedback loop in the Wnt signaling pathway.&quot; <i>Sci Signal</i> <b>7</b>(317):ra26; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24643799 24643799]; doi: [https://dx.doi.org/10.1126/scisignal.2004985 10.1126/scisignal.2004985]; GPMDB: [http://gpmdb.org/data/keyword/24643799 10].
+
#de Groot RE, Ganji RS, Bernatik O, Lloyd-Lewis B, Seipel K, Å edová K, Zdráhal Z, Dhople VM, Dale TC, Korswagen HC, Bryja V,  (2014) &quot;Huwe1-mediated ubiquitylation of dishevelled defines a negative feedback loop in the Wnt signaling pathway.&quot; <i>Sci Signal</i> <b>7</b>(317):ra26; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24643799 24643799]; doi: [https://dx.doi.org/10.1126/scisignal.2004985 10.1126/scisignal.2004985]; GPMDB: [http://gpmdb.org/data/keyword/24643799 10].
#Sahasrabuddhe NA, Barbhuiya MA, Bhunia S, Subbannayya T, Gowda H, Advani J, Shrivastav BR, Navani S, Leal P, Roa JC, Chaerkady R, Gupta S, Chatterjee A, Pandey A, Tiwari PK,  (2014) &quot;Identification of prosaposin and transgelin as potential biomarkers for gallbladder cancer using quantitative proteomics.&quot; <i>Biochem Biophys Res Commun</i> <b>446</b>(4):863&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24657443 24657443]; doi: [https://dx.doi.org/10.1016/j.bbrc.2014.03.017 10.1016/j.bbrc.2014.03.017]; GPMDB: [http://gpmdb.org/data/keyword/24657443 29].
#Sahasrabuddhe NA, Barbhuiya MA, Bhunia S, Subbannayya T, Gowda H, Advani J, Shrivastav BR, Navani S, Leal P, Roa JC, Chaerkady R, Gupta S, Chatterjee A, Pandey A, Tiwari PK,  (2014) &quot;Identification of prosaposin and transgelin as potential biomarkers for gallbladder cancer using quantitative proteomics.&quot; <i>Biochem Biophys Res Commun</i> <b>446</b>(4):863&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24657443 24657443]; doi: [https://dx.doi.org/10.1016/j.bbrc.2014.03.017 10.1016/j.bbrc.2014.03.017]; GPMDB: [http://gpmdb.org/data/keyword/24657443 29].
#Pinto SM, Manda SS, Kim MS, Taylor K, Selvan LD, Balakrishnan L, Subbannayya T, Yan F, Prasad TS, Gowda H, Lee C, Hancock WS, Pandey A,  (2014) &quot;Functional annotation of proteome encoded by human chromosome 22.&quot; <i>J Proteome Res</i> <b>13</b>(6):2749&ndash;60; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24669763 24669763]; doi: [https://dx.doi.org/10.1021/pr401169d 10.1021/pr401169d]; GPMDB: [http://gpmdb.org/data/keyword/24669763 88].
#Pinto SM, Manda SS, Kim MS, Taylor K, Selvan LD, Balakrishnan L, Subbannayya T, Yan F, Prasad TS, Gowda H, Lee C, Hancock WS, Pandey A,  (2014) &quot;Functional annotation of proteome encoded by human chromosome 22.&quot; <i>J Proteome Res</i> <b>13</b>(6):2749&ndash;60; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24669763 24669763]; doi: [https://dx.doi.org/10.1021/pr401169d 10.1021/pr401169d]; GPMDB: [http://gpmdb.org/data/keyword/24669763 88].
#Kume H, Muraoka S, Kuga T, Adachi J, Narumi R, Watanabe S, Kuwano M, Kodera Y, Matsushita K, Fukuoka J, Masuda T, Ishihama Y, Matsubara H, Nomura F, Tomonaga T,  (2014) &quot;Discovery of colorectal cancer biomarker candidates by membrane proteomic analysis and subsequent verification using selected reaction monitoring (SRM) and tissue microarray (TMA) analysis.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(6):1471&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24687888 24687888]; doi: [https://dx.doi.org/10.1074/mcp.M113.037093 10.1074/mcp.M113.037093]; GPMDB: [http://gpmdb.org/data/keyword/24687888 6].
#Kume H, Muraoka S, Kuga T, Adachi J, Narumi R, Watanabe S, Kuwano M, Kodera Y, Matsushita K, Fukuoka J, Masuda T, Ishihama Y, Matsubara H, Nomura F, Tomonaga T,  (2014) &quot;Discovery of colorectal cancer biomarker candidates by membrane proteomic analysis and subsequent verification using selected reaction monitoring (SRM) and tissue microarray (TMA) analysis.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(6):1471&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24687888 24687888]; doi: [https://dx.doi.org/10.1074/mcp.M113.037093 10.1074/mcp.M113.037093]; GPMDB: [http://gpmdb.org/data/keyword/24687888 6].
#Guo X, Trudgian DC, Lemoff A, Yadavalli S, Mirzaei H,  (2014) &quot;Confetti: a multiprotease map of the HeLa proteome for comprehensive proteomics.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(6):1573&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24696503 24696503]; doi: [https://dx.doi.org/10.1074/mcp.M113.035170 10.1074/mcp.M113.035170]; GPMDB: [http://gpmdb.org/data/keyword/24696503 99].
#Guo X, Trudgian DC, Lemoff A, Yadavalli S, Mirzaei H,  (2014) &quot;Confetti: a multiprotease map of the HeLa proteome for comprehensive proteomics.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(6):1573&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24696503 24696503]; doi: [https://dx.doi.org/10.1074/mcp.M113.035170 10.1074/mcp.M113.035170]; GPMDB: [http://gpmdb.org/data/keyword/24696503 99].
-
#Shevchuk O, Abidi N, Klawonn F, Wissing J, Nimtz M, Kugler C, Steinert M, Goldmann T, Jänsch L,  (2014) &quot;HOPE-fixation of lung tissue allows retrospective proteome and phosphoproteome studies.&quot; <i>J Proteome Res</i> <b>13</b>(11):5230&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24702127 24702127]; doi: [https://dx.doi.org/10.1021/pr500096a 10.1021/pr500096a]; GPMDB: [http://gpmdb.org/data/keyword/24702127 4].
+
#Shevchuk O, Abidi N, Klawonn F, Wissing J, Nimtz M, Kugler C, Steinert M, Goldmann T, Jänsch L,  (2014) &quot;HOPE-fixation of lung tissue allows retrospective proteome and phosphoproteome studies.&quot; <i>J Proteome Res</i> <b>13</b>(11):5230&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24702127 24702127]; doi: [https://dx.doi.org/10.1021/pr500096a 10.1021/pr500096a]; GPMDB: [http://gpmdb.org/data/keyword/24702127 4].
#Tsai CM, Wu HY, Su TH, Kuo CW, Huang HW, Chung CH, Chen CS, Khoo KH, Chen YJ, Lin KI,  (2014) &quot;Phosphoproteomic analyses reveal that galectin-1 augments the dynamics of B-cell receptor signaling.&quot; <i>J Proteomics</i> <b>103</b>:241&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24704852 24704852]; doi: [https://dx.doi.org/10.1016/j.jprot.2014.03.031 10.1016/j.jprot.2014.03.031]; GPMDB: [http://gpmdb.org/data/keyword/24704852 15].
#Tsai CM, Wu HY, Su TH, Kuo CW, Huang HW, Chung CH, Chen CS, Khoo KH, Chen YJ, Lin KI,  (2014) &quot;Phosphoproteomic analyses reveal that galectin-1 augments the dynamics of B-cell receptor signaling.&quot; <i>J Proteomics</i> <b>103</b>:241&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24704852 24704852]; doi: [https://dx.doi.org/10.1016/j.jprot.2014.03.031 10.1016/j.jprot.2014.03.031]; GPMDB: [http://gpmdb.org/data/keyword/24704852 15].
#MacLean AM, Orlovskis Z, Kowitwanich K, Zdziarska AM, Angenent GC, Immink RG, Hogenhout SA,  (2014) &quot;Phytoplasma effector SAP54 hijacks plant reproduction by degrading MADS-box proteins and promotes insect colonization in a RAD23-dependent manner.&quot; <i>PLoS Biol</i> <b>12</b>(4):e1001835; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24714165 24714165]; doi: [https://dx.doi.org/10.1371/journal.pbio.1001835 10.1371/journal.pbio.1001835]; GPMDB: [http://gpmdb.org/data/keyword/24714165 20].
#MacLean AM, Orlovskis Z, Kowitwanich K, Zdziarska AM, Angenent GC, Immink RG, Hogenhout SA,  (2014) &quot;Phytoplasma effector SAP54 hijacks plant reproduction by degrading MADS-box proteins and promotes insect colonization in a RAD23-dependent manner.&quot; <i>PLoS Biol</i> <b>12</b>(4):e1001835; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24714165 24714165]; doi: [https://dx.doi.org/10.1371/journal.pbio.1001835 10.1371/journal.pbio.1001835]; GPMDB: [http://gpmdb.org/data/keyword/24714165 20].
-
#Azimi A, Pernemalm M, Frostvik Stolt M, Hansson J, Lehtiö J, Egyházi Brage S, Hertzman Johansson C,  (2014) &quot;Proteomics analysis of melanoma metastases: association between S100A13 expression and chemotherapy resistance.&quot; <i>Br J Cancer</i> <b>110</b>(10):2489&ndash;95; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24722184 24722184]; doi: [https://dx.doi.org/10.1038/bjc.2014.169 10.1038/bjc.2014.169]; GPMDB: [http://gpmdb.org/data/keyword/24722184 146].
+
#Azimi A, Pernemalm M, Frostvik Stolt M, Hansson J, Lehtiö J, Egyházi Brage S, Hertzman Johansson C,  (2014) &quot;Proteomics analysis of melanoma metastases: association between S100A13 expression and chemotherapy resistance.&quot; <i>Br J Cancer</i> <b>110</b>(10):2489&ndash;95; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24722184 24722184]; doi: [https://dx.doi.org/10.1038/bjc.2014.169 10.1038/bjc.2014.169]; GPMDB: [http://gpmdb.org/data/keyword/24722184 146].
#Svozil J, Hirsch-Hoffmann M, Dudler R, Gruissem W, Baerenfaller K,  (2014) &quot;Protein abundance changes and ubiquitylation targets identified after inhibition of the proteasome with syringolin A.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(6):1523&ndash;36; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24732913 24732913]; doi: [https://dx.doi.org/10.1074/mcp.M113.036269 10.1074/mcp.M113.036269]; GPMDB: [http://gpmdb.org/data/keyword/24732913 128].
#Svozil J, Hirsch-Hoffmann M, Dudler R, Gruissem W, Baerenfaller K,  (2014) &quot;Protein abundance changes and ubiquitylation targets identified after inhibition of the proteasome with syringolin A.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(6):1523&ndash;36; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24732913 24732913]; doi: [https://dx.doi.org/10.1074/mcp.M113.036269 10.1074/mcp.M113.036269]; GPMDB: [http://gpmdb.org/data/keyword/24732913 128].
-
#Farrelly LA, Dicker P, Wynne K, English J, Cagney G, Föcking M, Cotter DR,  (2014) &quot;Adolescent Risperidone treatment alters protein expression associated with protein trafficking and cellular metabolism in the adult rat prefrontal cortex.&quot; <i>Proteomics</i> <b>14</b>(12):1574&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24733778 24733778]; doi: [https://dx.doi.org/10.1002/pmic.201300466 10.1002/pmic.201300466]; GPMDB: [http://gpmdb.org/data/keyword/24733778 30].
+
#Farrelly LA, Dicker P, Wynne K, English J, Cagney G, Föcking M, Cotter DR,  (2014) &quot;Adolescent Risperidone treatment alters protein expression associated with protein trafficking and cellular metabolism in the adult rat prefrontal cortex.&quot; <i>Proteomics</i> <b>14</b>(12):1574&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24733778 24733778]; doi: [https://dx.doi.org/10.1002/pmic.201300466 10.1002/pmic.201300466]; GPMDB: [http://gpmdb.org/data/keyword/24733778 30].
#Tran DT, Adhikari J, Fitzgerald MC,  (2014) &quot;StableIsotope Labeling with Amino Acids in Cell Culture (SILAC)-based strategy for proteome-wide thermodynamic analysis of protein-ligand binding interactions.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(7):1800&ndash;13; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24741112 24741112]; doi: [https://dx.doi.org/10.1074/mcp.M113.034702 10.1074/mcp.M113.034702]; GPMDB: [http://gpmdb.org/data/keyword/24741112 27].
#Tran DT, Adhikari J, Fitzgerald MC,  (2014) &quot;StableIsotope Labeling with Amino Acids in Cell Culture (SILAC)-based strategy for proteome-wide thermodynamic analysis of protein-ligand binding interactions.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(7):1800&ndash;13; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24741112 24741112]; doi: [https://dx.doi.org/10.1074/mcp.M113.034702 10.1074/mcp.M113.034702]; GPMDB: [http://gpmdb.org/data/keyword/24741112 27].
-
#Sansoni V, Casas-Delucchi CS, Rajan M, Schmidt A, Bönisch C, Thomae AW, Staege MS, Hake SB, Cardoso MC, Imhof A,  (2014) &quot;The histone variant H2A.Bbd is enriched at sites of DNA synthesis.&quot; <i>Nucleic Acids Res</i> <b>42</b>(10):6405&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24753410 24753410]; doi: [https://dx.doi.org/10.1093/nar/gku303 10.1093/nar/gku303]; GPMDB: [http://gpmdb.org/data/keyword/24753410 96].
+
#Sansoni V, Casas-Delucchi CS, Rajan M, Schmidt A, Bönisch C, Thomae AW, Staege MS, Hake SB, Cardoso MC, Imhof A,  (2014) &quot;The histone variant H2A.Bbd is enriched at sites of DNA synthesis.&quot; <i>Nucleic Acids Res</i> <b>42</b>(10):6405&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24753410 24753410]; doi: [https://dx.doi.org/10.1093/nar/gku303 10.1093/nar/gku303]; GPMDB: [http://gpmdb.org/data/keyword/24753410 96].
#Han D, Jin J, Woo J, Min H, Kim Y,  (2014) &quot;Proteomic analysis of mouse astrocytes and their secretome by a combination of FASP and StageTip-based, high pH, reversed-phase fractionation.&quot; <i>Proteomics</i> <b>14</b>(13-14):1604&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24753479 24753479]; doi: [https://dx.doi.org/10.1002/pmic.201300495 10.1002/pmic.201300495]; GPMDB: [http://gpmdb.org/data/keyword/24753479 107].
#Han D, Jin J, Woo J, Min H, Kim Y,  (2014) &quot;Proteomic analysis of mouse astrocytes and their secretome by a combination of FASP and StageTip-based, high pH, reversed-phase fractionation.&quot; <i>Proteomics</i> <b>14</b>(13-14):1604&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24753479 24753479]; doi: [https://dx.doi.org/10.1002/pmic.201300495 10.1002/pmic.201300495]; GPMDB: [http://gpmdb.org/data/keyword/24753479 107].
-
#Chiasserini D, van Weering JR, Piersma SR, Pham TV, Malekzadeh A, Teunissen CE, de Wit H, Jiménez CR,  (2014) &quot;Proteomic analysis of cerebrospinal fluid extracellular vesicles: a comprehensive dataset.&quot; <i>J Proteomics</i> <b>106</b>:191&ndash;204; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24769233 24769233]; doi: [https://dx.doi.org/10.1016/j.jprot.2014.04.028 10.1016/j.jprot.2014.04.028]; GPMDB: [http://gpmdb.org/data/keyword/24769233 36].
+
#Chiasserini D, van Weering JR, Piersma SR, Pham TV, Malekzadeh A, Teunissen CE, de Wit H, Jiménez CR,  (2014) &quot;Proteomic analysis of cerebrospinal fluid extracellular vesicles: a comprehensive dataset.&quot; <i>J Proteomics</i> <b>106</b>:191&ndash;204; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24769233 24769233]; doi: [https://dx.doi.org/10.1016/j.jprot.2014.04.028 10.1016/j.jprot.2014.04.028]; GPMDB: [http://gpmdb.org/data/keyword/24769233 36].
#Eravci M, Sommer C, Selbach M,  (2014) &quot;IPG strip-based peptide fractionation for shotgun proteomics.&quot; <i>Methods Mol Biol</i> <b>1156</b>:67&ndash;77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24791982 24791982]; doi: [https://dx.doi.org/10.1007/978-1-4939-0685-7_5 10.1007/978-1-4939-0685-7_5]; GPMDB: [http://gpmdb.org/data/keyword/24791982 41].
#Eravci M, Sommer C, Selbach M,  (2014) &quot;IPG strip-based peptide fractionation for shotgun proteomics.&quot; <i>Methods Mol Biol</i> <b>1156</b>:67&ndash;77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24791982 24791982]; doi: [https://dx.doi.org/10.1007/978-1-4939-0685-7_5 10.1007/978-1-4939-0685-7_5]; GPMDB: [http://gpmdb.org/data/keyword/24791982 41].
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#Güther ML, Urbaniak MD, Tavendale A, Prescott A, Ferguson MA,  (2014) &quot;High-confidence glycosome proteome for procyclic form Trypanosoma brucei by epitope-tag organelle enrichment and SILAC proteomics.&quot; <i>J Proteome Res</i> <b>13</b>(6):2796&ndash;806; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24792668 24792668]; doi: [https://dx.doi.org/10.1021/pr401209w 10.1021/pr401209w]; GPMDB: [http://gpmdb.org/data/keyword/24792668 154].
+
#Güther ML, Urbaniak MD, Tavendale A, Prescott A, Ferguson MA,  (2014) &quot;High-confidence glycosome proteome for procyclic form Trypanosoma brucei by epitope-tag organelle enrichment and SILAC proteomics.&quot; <i>J Proteome Res</i> <b>13</b>(6):2796&ndash;806; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24792668 24792668]; doi: [https://dx.doi.org/10.1021/pr401209w 10.1021/pr401209w]; GPMDB: [http://gpmdb.org/data/keyword/24792668 154].
#Guyonnet B, Egge N, Cornwall GA,  (2014) &quot;Functional amyloids in the mouse sperm acrosome.&quot; <i>Mol Cell Biol</i> <b>34</b>(14):2624&ndash;34; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24797071 24797071]; doi: [https://dx.doi.org/10.1128/MCB.00073-14 10.1128/MCB.00073-14]; GPMDB: [http://gpmdb.org/data/keyword/24797071 12].
#Guyonnet B, Egge N, Cornwall GA,  (2014) &quot;Functional amyloids in the mouse sperm acrosome.&quot; <i>Mol Cell Biol</i> <b>34</b>(14):2624&ndash;34; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24797071 24797071]; doi: [https://dx.doi.org/10.1128/MCB.00073-14 10.1128/MCB.00073-14]; GPMDB: [http://gpmdb.org/data/keyword/24797071 12].
#Tong J, Taylor P, Moran MF,  (2014) &quot;Proteomic analysis of the epidermal growth factor receptor (EGFR) interactome and post-translational modifications associated with receptor endocytosis in response to EGF and stress.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(7):1644&ndash;58; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24797263 24797263]; doi: [https://dx.doi.org/10.1074/mcp.M114.038596 10.1074/mcp.M114.038596]; GPMDB: [http://gpmdb.org/data/keyword/24797263 69].
#Tong J, Taylor P, Moran MF,  (2014) &quot;Proteomic analysis of the epidermal growth factor receptor (EGFR) interactome and post-translational modifications associated with receptor endocytosis in response to EGF and stress.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(7):1644&ndash;58; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24797263 24797263]; doi: [https://dx.doi.org/10.1074/mcp.M114.038596 10.1074/mcp.M114.038596]; GPMDB: [http://gpmdb.org/data/keyword/24797263 69].
Line 638: Line 638:
#Rowshanravan B, Woodcock SA, Botella JA, Kiermayer C, Schneuwly S, Hughes DA,  (2014) &quot;RasGAP mediates neuronal survival in Drosophila through direct regulation of Rab5-dependent endocytosis.&quot; <i>J Cell Sci</i> <b>127</b>(Pt 13):2849&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24816559 24816559]; doi: [https://dx.doi.org/10.1242/jcs.139329 10.1242/jcs.139329]; GPMDB: [http://gpmdb.org/data/keyword/24816559 42].
#Rowshanravan B, Woodcock SA, Botella JA, Kiermayer C, Schneuwly S, Hughes DA,  (2014) &quot;RasGAP mediates neuronal survival in Drosophila through direct regulation of Rab5-dependent endocytosis.&quot; <i>J Cell Sci</i> <b>127</b>(Pt 13):2849&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24816559 24816559]; doi: [https://dx.doi.org/10.1242/jcs.139329 10.1242/jcs.139329]; GPMDB: [http://gpmdb.org/data/keyword/24816559 42].
#Bracht T, Hagemann S, Loscha M, Megger DA, Padden J, Eisenacher M, Kuhlmann K, Meyer HE, Baba HA, Sitek B,  (2014) &quot;Proteome analysis of a hepatocyte-specific BIRC5 (survivin)-knockout mouse model during liver regeneration.&quot; <i>J Proteome Res</i> <b>13</b>(6):2771&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24818710 24818710]; doi: [https://dx.doi.org/10.1021/pr401188r 10.1021/pr401188r]; GPMDB: [http://gpmdb.org/data/keyword/24818710 68].
#Bracht T, Hagemann S, Loscha M, Megger DA, Padden J, Eisenacher M, Kuhlmann K, Meyer HE, Baba HA, Sitek B,  (2014) &quot;Proteome analysis of a hepatocyte-specific BIRC5 (survivin)-knockout mouse model during liver regeneration.&quot; <i>J Proteome Res</i> <b>13</b>(6):2771&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24818710 24818710]; doi: [https://dx.doi.org/10.1021/pr401188r 10.1021/pr401188r]; GPMDB: [http://gpmdb.org/data/keyword/24818710 68].
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#Siljamäki P, Varmanen P, Kankainen M, Sukura A, Savijoki K, Nyman TA,  (2014) &quot;Comparative exoprotein profiling of different Staphylococcus epidermidis strains reveals potential link between nonclassical protein export and virulence.&quot; <i>J Proteome Res</i> <b>13</b>(7):3249&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24840314 24840314]; doi: [https://dx.doi.org/10.1021/pr500075j 10.1021/pr500075j]; GPMDB: [http://gpmdb.org/data/keyword/24840314 94].
+
#Siljamäki P, Varmanen P, Kankainen M, Sukura A, Savijoki K, Nyman TA,  (2014) &quot;Comparative exoprotein profiling of different Staphylococcus epidermidis strains reveals potential link between nonclassical protein export and virulence.&quot; <i>J Proteome Res</i> <b>13</b>(7):3249&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24840314 24840314]; doi: [https://dx.doi.org/10.1021/pr500075j 10.1021/pr500075j]; GPMDB: [http://gpmdb.org/data/keyword/24840314 94].
#Barth TK, Schade GO, Schmidt A, Vetter I, Wirth M, Heun P, Thomae AW, Imhof A,  (2014) &quot;Identification of novel Drosophila centromere-associated proteins.&quot; <i>Proteomics</i> <b>14</b>(19):2167&ndash;78; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24841622 24841622]; doi: [https://dx.doi.org/10.1002/pmic.201400052 10.1002/pmic.201400052]; GPMDB: [http://gpmdb.org/data/keyword/24841622 72].
#Barth TK, Schade GO, Schmidt A, Vetter I, Wirth M, Heun P, Thomae AW, Imhof A,  (2014) &quot;Identification of novel Drosophila centromere-associated proteins.&quot; <i>Proteomics</i> <b>14</b>(19):2167&ndash;78; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24841622 24841622]; doi: [https://dx.doi.org/10.1002/pmic.201400052 10.1002/pmic.201400052]; GPMDB: [http://gpmdb.org/data/keyword/24841622 72].
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#Poulsen ET, Dyrlund TF, Runager K, Scavenius C, Krogager TP, Højrup P, Thøgersen IB, Sanggaard KW, Vorum H, Hjortdal J, Enghild JJ,  (2014) &quot;Proteomics of Fuchs' endothelial corneal dystrophy support that the extracellular matrix of Descemet's membrane is disordered.&quot; <i>J Proteome Res</i> <b>13</b>(11):4659&ndash;67; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24846694 24846694]; doi: [https://dx.doi.org/10.1021/pr500252r 10.1021/pr500252r]; GPMDB: [http://gpmdb.org/data/keyword/24846694 66].
+
#Poulsen ET, Dyrlund TF, Runager K, Scavenius C, Krogager TP, Højrup P, Thøgersen IB, Sanggaard KW, Vorum H, Hjortdal J, Enghild JJ,  (2014) &quot;Proteomics of Fuchs' endothelial corneal dystrophy support that the extracellular matrix of Descemet's membrane is disordered.&quot; <i>J Proteome Res</i> <b>13</b>(11):4659&ndash;67; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24846694 24846694]; doi: [https://dx.doi.org/10.1021/pr500252r 10.1021/pr500252r]; GPMDB: [http://gpmdb.org/data/keyword/24846694 66].
#Leong HS, Dawson K, Wirth C, Li Y, Connolly Y, Smith DL, Wilkinson CR, Miller CJ,  (2014) &quot;A global non-coding RNA system modulates fission yeast protein levels in response to stress.&quot; <i>Nat Commun</i> <b>5</b>:3947; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24853205 24853205]; doi: [https://dx.doi.org/10.1038/ncomms4947 10.1038/ncomms4947]; GPMDB: [http://gpmdb.org/data/keyword/24853205 60].
#Leong HS, Dawson K, Wirth C, Li Y, Connolly Y, Smith DL, Wilkinson CR, Miller CJ,  (2014) &quot;A global non-coding RNA system modulates fission yeast protein levels in response to stress.&quot; <i>Nat Commun</i> <b>5</b>:3947; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24853205 24853205]; doi: [https://dx.doi.org/10.1038/ncomms4947 10.1038/ncomms4947]; GPMDB: [http://gpmdb.org/data/keyword/24853205 60].
#Wilhelm M, Schlegl J, Hahne H, Moghaddas Gholami A, Lieberenz M, Savitski MM, Ziegler E, Butzmann L, Gessulat S, Marx H, Mathieson T, Lemeer S, Schnatbaum K, Reimer U, Wenschuh H, Mollenhauer M, Slotta-Huspenina J, Boese JH, Bantscheff M, Gerstmair A, Faerber F, Kuster B,  (2014) &quot;Mass-spectrometry-based draft of the human proteome.&quot; <i>Nature</i> <b>509</b>(7502):582&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24870543 24870543]; doi: [https://dx.doi.org/10.1038/nature13319 10.1038/nature13319]; GPMDB: [http://gpmdb.org/data/keyword/24870543 1257].
#Wilhelm M, Schlegl J, Hahne H, Moghaddas Gholami A, Lieberenz M, Savitski MM, Ziegler E, Butzmann L, Gessulat S, Marx H, Mathieson T, Lemeer S, Schnatbaum K, Reimer U, Wenschuh H, Mollenhauer M, Slotta-Huspenina J, Boese JH, Bantscheff M, Gerstmair A, Faerber F, Kuster B,  (2014) &quot;Mass-spectrometry-based draft of the human proteome.&quot; <i>Nature</i> <b>509</b>(7502):582&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24870543 24870543]; doi: [https://dx.doi.org/10.1038/nature13319 10.1038/nature13319]; GPMDB: [http://gpmdb.org/data/keyword/24870543 1257].
#van der Post S, Hansson GC,  (2014) &quot;Membrane protein profiling of human colon reveals distinct regional differences.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(9):2277&ndash;87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24889196 24889196]; doi: [https://dx.doi.org/10.1074/mcp.M114.040204 10.1074/mcp.M114.040204]; GPMDB: [http://gpmdb.org/data/keyword/24889196 16].
#van der Post S, Hansson GC,  (2014) &quot;Membrane protein profiling of human colon reveals distinct regional differences.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(9):2277&ndash;87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24889196 24889196]; doi: [https://dx.doi.org/10.1074/mcp.M114.040204 10.1074/mcp.M114.040204]; GPMDB: [http://gpmdb.org/data/keyword/24889196 16].
#Kim MS, Zhong Y, Yachida S, Rajeshkumar NV, Abel ML, Marimuthu A, Mudgal K, Hruban RH, Poling JS, Tyner JW, Maitra A, Iacobuzio-Donahue CA, Pandey A,  (2014) &quot;Heterogeneity of pancreatic cancer metastases in a single patient revealed by quantitative proteomics.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(11):2803&ndash;11; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24895378 24895378]; doi: [https://dx.doi.org/10.1074/mcp.M114.038547 10.1074/mcp.M114.038547]; GPMDB: [http://gpmdb.org/data/keyword/24895378 24].
#Kim MS, Zhong Y, Yachida S, Rajeshkumar NV, Abel ML, Marimuthu A, Mudgal K, Hruban RH, Poling JS, Tyner JW, Maitra A, Iacobuzio-Donahue CA, Pandey A,  (2014) &quot;Heterogeneity of pancreatic cancer metastases in a single patient revealed by quantitative proteomics.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(11):2803&ndash;11; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24895378 24895378]; doi: [https://dx.doi.org/10.1074/mcp.M114.038547 10.1074/mcp.M114.038547]; GPMDB: [http://gpmdb.org/data/keyword/24895378 24].
-
#Siljamäki P, Varmanen P, Kankainen M, Pyörälä S, Karonen T, Iivanainen A, Auvinen P, Paulin L, Laine PK, Taponen S, Simojoki H, Sukura A, Nyman TA, Savijoki K,  (2014) &quot;Comparative proteome profiling of bovine and human Staphylococcus epidermidis strains for screening specifically expressed virulence and adaptation proteins.&quot; <i>Proteomics</i> <b>14</b>(16):1890&ndash;4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24909406 24909406]; doi: [https://dx.doi.org/10.1002/pmic.201300275 10.1002/pmic.201300275]; GPMDB: [http://gpmdb.org/data/keyword/24909406 3].
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#Siljamäki P, Varmanen P, Kankainen M, Pyörälä S, Karonen T, Iivanainen A, Auvinen P, Paulin L, Laine PK, Taponen S, Simojoki H, Sukura A, Nyman TA, Savijoki K,  (2014) &quot;Comparative proteome profiling of bovine and human Staphylococcus epidermidis strains for screening specifically expressed virulence and adaptation proteins.&quot; <i>Proteomics</i> <b>14</b>(16):1890&ndash;4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24909406 24909406]; doi: [https://dx.doi.org/10.1002/pmic.201300275 10.1002/pmic.201300275]; GPMDB: [http://gpmdb.org/data/keyword/24909406 3].
-
#Köcher T, Pichler P, De Pra M, Rieux L, Swart R, Mechtler K,  (2014) &quot;Development and performance evaluation of an ultralow flow nanoliquid chromatography-tandem mass spectrometry set-up.&quot; <i>Proteomics</i> <b>14</b>(17-18):1999&ndash;2007; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24920484 24920484]; doi: [https://dx.doi.org/10.1002/pmic.201300418 10.1002/pmic.201300418]; GPMDB: [http://gpmdb.org/data/keyword/24920484 39].
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#Köcher T, Pichler P, De Pra M, Rieux L, Swart R, Mechtler K,  (2014) &quot;Development and performance evaluation of an ultralow flow nanoliquid chromatography-tandem mass spectrometry set-up.&quot; <i>Proteomics</i> <b>14</b>(17-18):1999&ndash;2007; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24920484 24920484]; doi: [https://dx.doi.org/10.1002/pmic.201300418 10.1002/pmic.201300418]; GPMDB: [http://gpmdb.org/data/keyword/24920484 39].
#Corradini E, Vallur R, Raaijmakers LM, Feil S, Feil R, Heck AJ, Scholten A,  (2014) &quot;Alterations in the cerebellar (Phospho)proteome of a cyclic guanosine monophosphate (cGMP)-dependent protein kinase knockout mouse.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(8):2004&ndash;16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24925903 24925903]; doi: [https://dx.doi.org/10.1074/mcp.M113.035154 10.1074/mcp.M113.035154]; GPMDB: [http://gpmdb.org/data/keyword/24925903 6].
#Corradini E, Vallur R, Raaijmakers LM, Feil S, Feil R, Heck AJ, Scholten A,  (2014) &quot;Alterations in the cerebellar (Phospho)proteome of a cyclic guanosine monophosphate (cGMP)-dependent protein kinase knockout mouse.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(8):2004&ndash;16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24925903 24925903]; doi: [https://dx.doi.org/10.1074/mcp.M113.035154 10.1074/mcp.M113.035154]; GPMDB: [http://gpmdb.org/data/keyword/24925903 6].
#Kukuczka B, Magneschi L, Petroutsos D, Steinbeck J, Bald T, Powikrowska M, Fufezan C, Finazzi G, Hippler M,  (2014) &quot;Proton Gradient Regulation5-Like1-Mediated Cyclic Electron Flow Is Crucial for Acclimation to Anoxia and Complementary to Nonphotochemical Quenching in Stress Adaptation.&quot; <i>Plant Physiol</i> <b>165</b>(4):1604&ndash;1617; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24948831 24948831]; doi: [https://dx.doi.org/10.1104/pp.114.240648 10.1104/pp.114.240648]; GPMDB: [http://gpmdb.org/data/keyword/24948831 79].
#Kukuczka B, Magneschi L, Petroutsos D, Steinbeck J, Bald T, Powikrowska M, Fufezan C, Finazzi G, Hippler M,  (2014) &quot;Proton Gradient Regulation5-Like1-Mediated Cyclic Electron Flow Is Crucial for Acclimation to Anoxia and Complementary to Nonphotochemical Quenching in Stress Adaptation.&quot; <i>Plant Physiol</i> <b>165</b>(4):1604&ndash;1617; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24948831 24948831]; doi: [https://dx.doi.org/10.1104/pp.114.240648 10.1104/pp.114.240648]; GPMDB: [http://gpmdb.org/data/keyword/24948831 79].
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#de Graaf EL, Kaplon J, Zhou H, Heck AJ, Peeper DS, Altelaar AF,  (2014) &quot;Phosphoproteome dynamics in onset and maintenance of oncogene-induced senescence.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(8):2089&ndash;100; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24961811 24961811]; doi: [https://dx.doi.org/10.1074/mcp.M113.035436 10.1074/mcp.M113.035436]; GPMDB: [http://gpmdb.org/data/keyword/24961811 223].
#de Graaf EL, Kaplon J, Zhou H, Heck AJ, Peeper DS, Altelaar AF,  (2014) &quot;Phosphoproteome dynamics in onset and maintenance of oncogene-induced senescence.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(8):2089&ndash;100; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24961811 24961811]; doi: [https://dx.doi.org/10.1074/mcp.M113.035436 10.1074/mcp.M113.035436]; GPMDB: [http://gpmdb.org/data/keyword/24961811 223].
#Iesmantavicius V, Weinert BT, Choudhary C,  (2014) &quot;Convergence of ubiquitylation and phosphorylation signaling in rapamycin-treated yeast cells.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(8):1979&ndash;92; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24961812 24961812]; doi: [https://dx.doi.org/10.1074/mcp.O113.035683 10.1074/mcp.O113.035683]; GPMDB: [http://gpmdb.org/data/keyword/24961812 71].
#Iesmantavicius V, Weinert BT, Choudhary C,  (2014) &quot;Convergence of ubiquitylation and phosphorylation signaling in rapamycin-treated yeast cells.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(8):1979&ndash;92; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24961812 24961812]; doi: [https://dx.doi.org/10.1074/mcp.O113.035683 10.1074/mcp.O113.035683]; GPMDB: [http://gpmdb.org/data/keyword/24961812 71].
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#Milbradt J, Kraut A, Hutterer C, Sonntag E, Schmeiser C, Ferro M, Wagner S, Lenac T, Claus C, Pinkert S, Hamilton ST, Rawlinson WD, Sticht H, Couté Y, Marschall M,  (2014) &quot;Proteomic analysis of the multimeric nuclear egress complex of human cytomegalovirus.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(8):2132&ndash;46; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24969177 24969177]; doi: [https://dx.doi.org/10.1074/mcp.M113.035782 10.1074/mcp.M113.035782]; GPMDB: [http://gpmdb.org/data/keyword/24969177 24].
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#Milbradt J, Kraut A, Hutterer C, Sonntag E, Schmeiser C, Ferro M, Wagner S, Lenac T, Claus C, Pinkert S, Hamilton ST, Rawlinson WD, Sticht H, Couté Y, Marschall M,  (2014) &quot;Proteomic analysis of the multimeric nuclear egress complex of human cytomegalovirus.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(8):2132&ndash;46; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24969177 24969177]; doi: [https://dx.doi.org/10.1074/mcp.M113.035782 10.1074/mcp.M113.035782]; GPMDB: [http://gpmdb.org/data/keyword/24969177 24].
#Fischer MG, Kelly I, Foster LJ, Suttle CA,  (2014) &quot;The virion of Cafeteria roenbergensis virus (CroV) contains a complex suite of proteins for transcription and DNA repair.&quot; <i>Virology</i> <b>466-467</b>:82&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24973308 24973308]; doi: [https://dx.doi.org/10.1016/j.virol.2014.05.029 10.1016/j.virol.2014.05.029]; GPMDB: [http://gpmdb.org/data/keyword/24973308 10].
#Fischer MG, Kelly I, Foster LJ, Suttle CA,  (2014) &quot;The virion of Cafeteria roenbergensis virus (CroV) contains a complex suite of proteins for transcription and DNA repair.&quot; <i>Virology</i> <b>466-467</b>:82&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24973308 24973308]; doi: [https://dx.doi.org/10.1016/j.virol.2014.05.029 10.1016/j.virol.2014.05.029]; GPMDB: [http://gpmdb.org/data/keyword/24973308 10].
-
#Chiva C, Ortega M, Sabidó E,  (2014) &quot;Influence of the digestion technique, protease, and missed cleavage peptides in protein quantitation.&quot; <i>J Proteome Res</i> <b>13</b>(9):3979&ndash;86; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24986539 24986539]; doi: [https://dx.doi.org/10.1021/pr500294d 10.1021/pr500294d]; GPMDB: [http://gpmdb.org/data/keyword/24986539 89].
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#Chiva C, Ortega M, Sabidó E,  (2014) &quot;Influence of the digestion technique, protease, and missed cleavage peptides in protein quantitation.&quot; <i>J Proteome Res</i> <b>13</b>(9):3979&ndash;86; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24986539 24986539]; doi: [https://dx.doi.org/10.1021/pr500294d 10.1021/pr500294d]; GPMDB: [http://gpmdb.org/data/keyword/24986539 89].
#Uechi G, Sun Z, Schreiber EM, Halfter W, Balasubramani M,  (2014) &quot;Proteomic View of Basement Membranes from Human Retinal Blood Vessels, Inner Limiting Membranes, and Lens Capsules.&quot; <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24990792 24990792]; doi: [https://dx.doi.org/10.1021/pr5002065 10.1021/pr5002065]; GPMDB: [http://gpmdb.org/data/keyword/24990792 315].
#Uechi G, Sun Z, Schreiber EM, Halfter W, Balasubramani M,  (2014) &quot;Proteomic View of Basement Membranes from Human Retinal Blood Vessels, Inner Limiting Membranes, and Lens Capsules.&quot; <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24990792 24990792]; doi: [https://dx.doi.org/10.1021/pr5002065 10.1021/pr5002065]; GPMDB: [http://gpmdb.org/data/keyword/24990792 315].
#Zhang H, Wu P, Chen F, Hao Y, Lao Y, Ren L, Sun L, Sun W, Wei H, Chan DW, Jiang Y, He F,  (2014) &quot;SILAC-based quantitative proteomic analysis of secretome between activated and reverted hepatic stellate cells.&quot; <i>Proteomics</i> <b>14</b>(17-18):1977&ndash;86; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24995952 24995952]; doi: [https://dx.doi.org/10.1002/pmic.201300539 10.1002/pmic.201300539]; GPMDB: [http://gpmdb.org/data/keyword/24995952 30].
#Zhang H, Wu P, Chen F, Hao Y, Lao Y, Ren L, Sun L, Sun W, Wei H, Chan DW, Jiang Y, He F,  (2014) &quot;SILAC-based quantitative proteomic analysis of secretome between activated and reverted hepatic stellate cells.&quot; <i>Proteomics</i> <b>14</b>(17-18):1977&ndash;86; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24995952 24995952]; doi: [https://dx.doi.org/10.1002/pmic.201300539 10.1002/pmic.201300539]; GPMDB: [http://gpmdb.org/data/keyword/24995952 30].
#Pasillas MP, Shields S, Reilly R, Strnadel J, Behl C, Park R, Yates JR 3rd, Klemke R, Gonias SL, Coppinger JA,  (2015) &quot;Proteomic analysis reveals a role for Bcl2-associated athanogene 3 and major vault protein in resistance to apoptosis in senescent cells by regulating ERK1/2 activation.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(1):1&ndash;14; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24997994 24997994]; doi: [https://dx.doi.org/10.1074/mcp.M114.037697 10.1074/mcp.M114.037697]; GPMDB: [http://gpmdb.org/data/keyword/24997994 51].
#Pasillas MP, Shields S, Reilly R, Strnadel J, Behl C, Park R, Yates JR 3rd, Klemke R, Gonias SL, Coppinger JA,  (2015) &quot;Proteomic analysis reveals a role for Bcl2-associated athanogene 3 and major vault protein in resistance to apoptosis in senescent cells by regulating ERK1/2 activation.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(1):1&ndash;14; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24997994 24997994]; doi: [https://dx.doi.org/10.1074/mcp.M114.037697 10.1074/mcp.M114.037697]; GPMDB: [http://gpmdb.org/data/keyword/24997994 51].
#Chopra T, Hamelin R, Armand F, Chiappe D, Moniatte M, McKinney JD,  (2014) &quot;Quantitative mass spectrometry reveals plasticity of metabolic networks in Mycobacterium smegmatis.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(11):3014&ndash;28; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24997995 24997995]; doi: [https://dx.doi.org/10.1074/mcp.M113.034082 10.1074/mcp.M113.034082]; GPMDB: [http://gpmdb.org/data/keyword/24997995 28].
#Chopra T, Hamelin R, Armand F, Chiappe D, Moniatte M, McKinney JD,  (2014) &quot;Quantitative mass spectrometry reveals plasticity of metabolic networks in Mycobacterium smegmatis.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(11):3014&ndash;28; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24997995 24997995]; doi: [https://dx.doi.org/10.1074/mcp.M113.034082 10.1074/mcp.M113.034082]; GPMDB: [http://gpmdb.org/data/keyword/24997995 28].
-
#Öhman T, Söderholm S, Hintsanen P, Välimäki E, Lietzén N, MacKintosh C, Aittokallio T, Matikainen S, Nyman TA,  (2014) &quot;Phosphoproteomics combined with quantitative 14-3-3-affinity capture identifies SIRT1 and RAI as novel regulators of cytosolic double-stranded RNA recognition pathway.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(10):2604&ndash;17; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24997996 24997996]; doi: [https://dx.doi.org/10.1074/mcp.M114.038968 10.1074/mcp.M114.038968]; GPMDB: [http://gpmdb.org/data/keyword/24997996 44].
+
#Öhman T, Söderholm S, Hintsanen P, Välimäki E, Lietzén N, MacKintosh C, Aittokallio T, Matikainen S, Nyman TA,  (2014) &quot;Phosphoproteomics combined with quantitative 14-3-3-affinity capture identifies SIRT1 and RAI as novel regulators of cytosolic double-stranded RNA recognition pathway.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(10):2604&ndash;17; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24997996 24997996]; doi: [https://dx.doi.org/10.1074/mcp.M114.038968 10.1074/mcp.M114.038968]; GPMDB: [http://gpmdb.org/data/keyword/24997996 44].
#Sangar V, Funk CC, Kusebauch U, Campbell DS, Moritz RL, Price ND,  (2014) &quot;Quantitative proteomic analysis reveals effects of epidermal growth factor receptor (EGFR) on invasion-promoting proteins secreted by glioblastoma cells.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(10):2618&ndash;31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24997998 24997998]; doi: [https://dx.doi.org/10.1074/mcp.M114.040428 10.1074/mcp.M114.040428]; GPMDB: [http://gpmdb.org/data/keyword/24997998 8].
#Sangar V, Funk CC, Kusebauch U, Campbell DS, Moritz RL, Price ND,  (2014) &quot;Quantitative proteomic analysis reveals effects of epidermal growth factor receptor (EGFR) on invasion-promoting proteins secreted by glioblastoma cells.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(10):2618&ndash;31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24997998 24997998]; doi: [https://dx.doi.org/10.1074/mcp.M114.040428 10.1074/mcp.M114.040428]; GPMDB: [http://gpmdb.org/data/keyword/24997998 8].
-
#Savijoki K, Iivanainen A, Siljamäki P, Laine PK, Paulin L, Karonen T, Pyörälä S, Kankainen M, Nyman TA, Salomäki T, Koskinen P, Holm L, Simojoki H, Taponen S, Sukura A, Kalkkinen N, Auvinen P, Varmanen P,  (2014) &quot;Genomics and Proteomics Provide New Insight into the Commensal and Pathogenic Lifestyles of Bovine- and Human-Associated Staphylococcus epidermidis Strains.&quot; <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25014494 25014494]; doi: [https://dx.doi.org/10.1021/pr500322d 10.1021/pr500322d]; GPMDB: [http://gpmdb.org/data/keyword/25014494 8].
+
#Savijoki K, Iivanainen A, Siljamäki P, Laine PK, Paulin L, Karonen T, Pyörälä S, Kankainen M, Nyman TA, Salomäki T, Koskinen P, Holm L, Simojoki H, Taponen S, Sukura A, Kalkkinen N, Auvinen P, Varmanen P,  (2014) &quot;Genomics and Proteomics Provide New Insight into the Commensal and Pathogenic Lifestyles of Bovine- and Human-Associated Staphylococcus epidermidis Strains.&quot; <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25014494 25014494]; doi: [https://dx.doi.org/10.1021/pr500322d 10.1021/pr500322d]; GPMDB: [http://gpmdb.org/data/keyword/25014494 8].
#de Keijzer J, de Haas PE, de Ru AH, van Veelen PA, van Soolingen D,  (2014) &quot;Disclosure of selective advantages in the "modern" sublineage of the Mycobacterium tuberculosis Beijing genotype family by quantitative proteomics.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(10):2632&ndash;45; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25022876 25022876]; doi: [https://dx.doi.org/10.1074/mcp.M114.038380 10.1074/mcp.M114.038380]; GPMDB: [http://gpmdb.org/data/keyword/25022876 152].
#de Keijzer J, de Haas PE, de Ru AH, van Veelen PA, van Soolingen D,  (2014) &quot;Disclosure of selective advantages in the "modern" sublineage of the Mycobacterium tuberculosis Beijing genotype family by quantitative proteomics.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(10):2632&ndash;45; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25022876 25022876]; doi: [https://dx.doi.org/10.1074/mcp.M114.038380 10.1074/mcp.M114.038380]; GPMDB: [http://gpmdb.org/data/keyword/25022876 152].
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#Engel E, Viargues P, Mortier M, Taillebourg E, Couté Y, Thevenon D, Fauvarque MO,  (2014) &quot;Identifying USPs regulating immune signals in Drosophila: USP2 deubiquitinates Imd and promotes its degradation by interacting with the proteasome.&quot; <i>Cell Commun Signal</i> <b>12</b>:41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25027767 25027767]; doi: [https://dx.doi.org/10.1186/PREACCEPT-1588328929121802 10.1186/PREACCEPT-1588328929121802]; GPMDB: [http://gpmdb.org/data/keyword/25027767 2].
+
#Engel E, Viargues P, Mortier M, Taillebourg E, Couté Y, Thevenon D, Fauvarque MO,  (2014) &quot;Identifying USPs regulating immune signals in Drosophila: USP2 deubiquitinates Imd and promotes its degradation by interacting with the proteasome.&quot; <i>Cell Commun Signal</i> <b>12</b>:41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25027767 25027767]; doi: [https://dx.doi.org/10.1186/PREACCEPT-1588328929121802 10.1186/PREACCEPT-1588328929121802]; GPMDB: [http://gpmdb.org/data/keyword/25027767 2].
#Padden J, Megger DA, Bracht T, Reis H, Ahrens M, Kohl M, Eisenacher M, Schlaak JF, Canbay AE, Weber F, Hoffmann AC, Kuhlmann K, Meyer HE, Baba HA, Sitek B,  (2014) &quot;Identification of novel biomarker candidates for the immunohistochemical diagnosis of cholangiocellular carcinoma.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(10):2661&ndash;72; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25034945 25034945]; doi: [https://dx.doi.org/10.1074/mcp.M113.034942 10.1074/mcp.M113.034942]; GPMDB: [http://gpmdb.org/data/keyword/25034945 16].
#Padden J, Megger DA, Bracht T, Reis H, Ahrens M, Kohl M, Eisenacher M, Schlaak JF, Canbay AE, Weber F, Hoffmann AC, Kuhlmann K, Meyer HE, Baba HA, Sitek B,  (2014) &quot;Identification of novel biomarker candidates for the immunohistochemical diagnosis of cholangiocellular carcinoma.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(10):2661&ndash;72; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25034945 25034945]; doi: [https://dx.doi.org/10.1074/mcp.M113.034942 10.1074/mcp.M113.034942]; GPMDB: [http://gpmdb.org/data/keyword/25034945 16].
#Naba A, Clauser KR, Whittaker CA, Carr SA, Tanabe KK, Hynes RO,  (2014) &quot;Extracellular matrix signatures of human primary metastatic colon cancers and their metastases to liver.&quot; <i>BMC Cancer</i> <b>14</b>:518; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25037231 25037231]; doi: [https://dx.doi.org/10.1186/1471-2407-14-518 10.1186/1471-2407-14-518]; GPMDB: [http://gpmdb.org/data/keyword/25037231 176].
#Naba A, Clauser KR, Whittaker CA, Carr SA, Tanabe KK, Hynes RO,  (2014) &quot;Extracellular matrix signatures of human primary metastatic colon cancers and their metastases to liver.&quot; <i>BMC Cancer</i> <b>14</b>:518; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25037231 25037231]; doi: [https://dx.doi.org/10.1186/1471-2407-14-518 10.1186/1471-2407-14-518]; GPMDB: [http://gpmdb.org/data/keyword/25037231 176].
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#Zhang B, Wang J, Wang X, Zhu J, Liu Q, Shi Z, Chambers MC, Zimmerman LJ, Shaddox KF, Kim S, Davies SR, Wang S, Wang P, Kinsinger CR, Rivers RC, Rodriguez H, Townsend RR, Ellis MJ, Carr SA, Tabb DL, Coffey RJ, Slebos RJ, Liebler DC, NCI CPTAC,  (2014) &quot;Proteogenomic characterization of human colon and rectal cancer.&quot; <i>Nature</i> <b>513</b>(7518):382&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25043054 25043054]; doi: [https://dx.doi.org/10.1038/nature13438 10.1038/nature13438]; GPMDB: [http://gpmdb.org/data/keyword/25043054 1381].
#Zhang B, Wang J, Wang X, Zhu J, Liu Q, Shi Z, Chambers MC, Zimmerman LJ, Shaddox KF, Kim S, Davies SR, Wang S, Wang P, Kinsinger CR, Rivers RC, Rodriguez H, Townsend RR, Ellis MJ, Carr SA, Tabb DL, Coffey RJ, Slebos RJ, Liebler DC, NCI CPTAC,  (2014) &quot;Proteogenomic characterization of human colon and rectal cancer.&quot; <i>Nature</i> <b>513</b>(7518):382&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25043054 25043054]; doi: [https://dx.doi.org/10.1038/nature13438 10.1038/nature13438]; GPMDB: [http://gpmdb.org/data/keyword/25043054 1381].
#An E, Narayanan M, Manes NP, Nita-Lazar A,  (2014) &quot;Characterization of functional reprogramming during osteoclast development using quantitative proteomics and mRNA profiling.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(10):2687&ndash;704; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25044017 25044017]; doi: [https://dx.doi.org/10.1074/mcp.M113.034371 10.1074/mcp.M113.034371]; GPMDB: [http://gpmdb.org/data/keyword/25044017 73].
#An E, Narayanan M, Manes NP, Nita-Lazar A,  (2014) &quot;Characterization of functional reprogramming during osteoclast development using quantitative proteomics and mRNA profiling.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(10):2687&ndash;704; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25044017 25044017]; doi: [https://dx.doi.org/10.1074/mcp.M113.034371 10.1074/mcp.M113.034371]; GPMDB: [http://gpmdb.org/data/keyword/25044017 73].
-
#Végh MJ, Rausell A, Loos M, Heldring CM, Jurkowski W, van Nierop P, Paliukhovich I, Li KW, del Sol A, Smit AB, Spijker S, van Kesteren RE,  (2014) &quot;Hippocampal extracellular matrix levels and stochasticity in synaptic protein expression increase with age and are associated with age-dependent cognitive decline.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(11):2975&ndash;85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25044018 25044018]; doi: [https://dx.doi.org/10.1074/mcp.M113.032086 10.1074/mcp.M113.032086]; GPMDB: [http://gpmdb.org/data/keyword/25044018 8].
+
#Végh MJ, Rausell A, Loos M, Heldring CM, Jurkowski W, van Nierop P, Paliukhovich I, Li KW, del Sol A, Smit AB, Spijker S, van Kesteren RE,  (2014) &quot;Hippocampal extracellular matrix levels and stochasticity in synaptic protein expression increase with age and are associated with age-dependent cognitive decline.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(11):2975&ndash;85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25044018 25044018]; doi: [https://dx.doi.org/10.1074/mcp.M113.032086 10.1074/mcp.M113.032086]; GPMDB: [http://gpmdb.org/data/keyword/25044018 8].
#Heo S, Spoerk S, Birner-Gruenberger R, Lubec G,  (2014) &quot;Gel-based mass spectrometric analysis of hippocampal transmembrane proteins using high resolution LTQ Orbitrap Velos Pro.&quot; <i>Proteomics</i> <b>14</b>(17-18):2084&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25044505 25044505]; doi: [https://dx.doi.org/10.1002/pmic.201400077 10.1002/pmic.201400077]; GPMDB: [http://gpmdb.org/data/keyword/25044505 60].
#Heo S, Spoerk S, Birner-Gruenberger R, Lubec G,  (2014) &quot;Gel-based mass spectrometric analysis of hippocampal transmembrane proteins using high resolution LTQ Orbitrap Velos Pro.&quot; <i>Proteomics</i> <b>14</b>(17-18):2084&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25044505 25044505]; doi: [https://dx.doi.org/10.1002/pmic.201400077 10.1002/pmic.201400077]; GPMDB: [http://gpmdb.org/data/keyword/25044505 60].
-
#Aasebø E, Vaudel M, Mjaavatten O, Gausdal G, Van der Burgh A, Gjertsen BT, Døskeland SO, Bruserud O, Berven FS, Selheim F,  (2014) &quot;Performance of super-SILAC based quantitative proteomics for comparison of different acute myeloid leukemia (AML) cell lines.&quot; <i>Proteomics</i> <b>14</b>(17-18):1971&ndash;6; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25044641 25044641]; doi: [https://dx.doi.org/10.1002/pmic.201300448 10.1002/pmic.201300448]; GPMDB: [http://gpmdb.org/data/keyword/25044641 186].
+
#Aasebø E, Vaudel M, Mjaavatten O, Gausdal G, Van der Burgh A, Gjertsen BT, Døskeland SO, Bruserud O, Berven FS, Selheim F,  (2014) &quot;Performance of super-SILAC based quantitative proteomics for comparison of different acute myeloid leukemia (AML) cell lines.&quot; <i>Proteomics</i> <b>14</b>(17-18):1971&ndash;6; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25044641 25044641]; doi: [https://dx.doi.org/10.1002/pmic.201300448 10.1002/pmic.201300448]; GPMDB: [http://gpmdb.org/data/keyword/25044641 186].
-
#Soleilhavoup C, Tsikis G, Labas V, Harichaux G, Kohnke PL, Dacheux JL, Guérin Y, Gatti JL, de Graaf SP, Druart X,  (2014) &quot;Ram seminal plasma proteome and its impact on liquid preservation of spermatozoa.&quot; <i>J Proteomics</i> <b>109</b>:245&ndash;60; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25053255 25053255]; doi: [https://dx.doi.org/10.1016/j.jprot.2014.07.007 10.1016/j.jprot.2014.07.007]; GPMDB: [http://gpmdb.org/data/keyword/25053255 114].
+
#Soleilhavoup C, Tsikis G, Labas V, Harichaux G, Kohnke PL, Dacheux JL, Guérin Y, Gatti JL, de Graaf SP, Druart X,  (2014) &quot;Ram seminal plasma proteome and its impact on liquid preservation of spermatozoa.&quot; <i>J Proteomics</i> <b>109</b>:245&ndash;60; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25053255 25053255]; doi: [https://dx.doi.org/10.1016/j.jprot.2014.07.007 10.1016/j.jprot.2014.07.007]; GPMDB: [http://gpmdb.org/data/keyword/25053255 114].
#Smits AH, Lindeboom RG, Perino M, van Heeringen SJ, Veenstra GJ, Vermeulen M,  (2014) &quot;Global absolute quantification reveals tight regulation of protein expression in single Xenopus eggs.&quot; <i>Nucleic Acids Res</i> <b>42</b>(15):9880&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25056316 25056316]; doi: [https://dx.doi.org/10.1093/nar/gku661 10.1093/nar/gku661]; GPMDB: [http://gpmdb.org/data/keyword/25056316 62].
#Smits AH, Lindeboom RG, Perino M, van Heeringen SJ, Veenstra GJ, Vermeulen M,  (2014) &quot;Global absolute quantification reveals tight regulation of protein expression in single Xenopus eggs.&quot; <i>Nucleic Acids Res</i> <b>42</b>(15):9880&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25056316 25056316]; doi: [https://dx.doi.org/10.1093/nar/gku661 10.1093/nar/gku661]; GPMDB: [http://gpmdb.org/data/keyword/25056316 62].
#Tao D, Ubaida-Mohien C, Mathias DK, King JG, Pastrana-Mena R, Tripathi A, Goldowitz I, Graham DR, Moss E, Marti M, Dinglasan RR,  (2014) &quot;Sex-partitioning of the Plasmodium falciparum stage V gametocyte proteome provides insight into falciparum-specific cell biology.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(10):2705&ndash;24; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25056935 25056935]; doi: [https://dx.doi.org/10.1074/mcp.M114.040956 10.1074/mcp.M114.040956]; GPMDB: [http://gpmdb.org/data/keyword/25056935 10].
#Tao D, Ubaida-Mohien C, Mathias DK, King JG, Pastrana-Mena R, Tripathi A, Goldowitz I, Graham DR, Moss E, Marti M, Dinglasan RR,  (2014) &quot;Sex-partitioning of the Plasmodium falciparum stage V gametocyte proteome provides insight into falciparum-specific cell biology.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(10):2705&ndash;24; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25056935 25056935]; doi: [https://dx.doi.org/10.1074/mcp.M114.040956 10.1074/mcp.M114.040956]; GPMDB: [http://gpmdb.org/data/keyword/25056935 10].
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#Dephoure N, Hwang S, O'Sullivan C, Dodgson SE, Gygi SP, Amon A, Torres EM,  (2014) &quot;Quantitative proteomic analysis reveals posttranslational responses to aneuploidy in yeast.&quot; <i>Elife</i> <b>3</b>:e03023; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25073701 25073701]; doi: [https://dx.doi.org/10.7554/eLife.03023 10.7554/eLife.03023]; GPMDB: [http://gpmdb.org/data/keyword/25073701 10].
#Dephoure N, Hwang S, O'Sullivan C, Dodgson SE, Gygi SP, Amon A, Torres EM,  (2014) &quot;Quantitative proteomic analysis reveals posttranslational responses to aneuploidy in yeast.&quot; <i>Elife</i> <b>3</b>:e03023; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25073701 25073701]; doi: [https://dx.doi.org/10.7554/eLife.03023 10.7554/eLife.03023]; GPMDB: [http://gpmdb.org/data/keyword/25073701 10].
#Yang W, Ramachandran A, You S, Jeong H, Morley S, Mulone MD, Logvinenko T, Kim J, Hwang D, Freeman MR, Adam RM,  (2014) &quot;Integration of proteomic and transcriptomic profiles identifies a novel PDGF-MYC network in human smooth muscle cells.&quot; <i>Cell Commun Signal</i> <b>12</b>:44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25080971 25080971]; doi: [https://dx.doi.org/10.1186/s12964-014-0044-z 10.1186/s12964-014-0044-z]; GPMDB: [http://gpmdb.org/data/keyword/25080971 30].
#Yang W, Ramachandran A, You S, Jeong H, Morley S, Mulone MD, Logvinenko T, Kim J, Hwang D, Freeman MR, Adam RM,  (2014) &quot;Integration of proteomic and transcriptomic profiles identifies a novel PDGF-MYC network in human smooth muscle cells.&quot; <i>Cell Commun Signal</i> <b>12</b>:44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25080971 25080971]; doi: [https://dx.doi.org/10.1186/s12964-014-0044-z 10.1186/s12964-014-0044-z]; GPMDB: [http://gpmdb.org/data/keyword/25080971 30].
-
#Labas V, Grasseau I, Cahier K, Gargaros A, Harichaux G, Teixeira-Gomes AP, Alves S, Bourin M, Gérard N, Blesbois E,  (2015) &quot;Qualitative and quantitative peptidomic and proteomic approaches to phenotyping chicken semen.&quot; <i>J Proteomics</i> <b>112</b>:313&ndash;35; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25086240 25086240]; doi: [https://dx.doi.org/10.1016/j.jprot.2014.07.024 10.1016/j.jprot.2014.07.024]; GPMDB: [http://gpmdb.org/data/keyword/25086240 44].
+
#Labas V, Grasseau I, Cahier K, Gargaros A, Harichaux G, Teixeira-Gomes AP, Alves S, Bourin M, Gérard N, Blesbois E,  (2015) &quot;Qualitative and quantitative peptidomic and proteomic approaches to phenotyping chicken semen.&quot; <i>J Proteomics</i> <b>112</b>:313&ndash;35; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25086240 25086240]; doi: [https://dx.doi.org/10.1016/j.jprot.2014.07.024 10.1016/j.jprot.2014.07.024]; GPMDB: [http://gpmdb.org/data/keyword/25086240 44].
#Alqahtani A, Heesom K, Bramson JL, Curiel D, Ugai H, Matthews DA,  (2014) &quot;Analysis of purified wild type and mutant adenovirus particles by SILAC based quantitative proteomics.&quot; <i>J Gen Virol</i> <b>95</b>(Pt 11):2504&ndash;11; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25096814 25096814]; doi: [https://dx.doi.org/10.1099/vir.0.068221-0 10.1099/vir.0.068221-0]; GPMDB: [http://gpmdb.org/data/keyword/25096814 22].
#Alqahtani A, Heesom K, Bramson JL, Curiel D, Ugai H, Matthews DA,  (2014) &quot;Analysis of purified wild type and mutant adenovirus particles by SILAC based quantitative proteomics.&quot; <i>J Gen Virol</i> <b>95</b>(Pt 11):2504&ndash;11; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25096814 25096814]; doi: [https://dx.doi.org/10.1099/vir.0.068221-0 10.1099/vir.0.068221-0]; GPMDB: [http://gpmdb.org/data/keyword/25096814 22].
#Zhang B, Pirmoradian M, Chernobrovkin A, Zubarev RA,  (2014) &quot;DeMix workflow for efficient identification of cofragmented peptides in high resolution data-dependent tandem mass spectrometry.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(11):3211&ndash;23; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25100859 25100859]; doi: [https://dx.doi.org/10.1074/mcp.O114.038877 10.1074/mcp.O114.038877]; GPMDB: [http://gpmdb.org/data/keyword/25100859 7].
#Zhang B, Pirmoradian M, Chernobrovkin A, Zubarev RA,  (2014) &quot;DeMix workflow for efficient identification of cofragmented peptides in high resolution data-dependent tandem mass spectrometry.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(11):3211&ndash;23; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25100859 25100859]; doi: [https://dx.doi.org/10.1074/mcp.O114.038877 10.1074/mcp.O114.038877]; GPMDB: [http://gpmdb.org/data/keyword/25100859 7].
#Wallin MT, Oh U, Nyalwidhe J, Semmes J, Kislinger T, Coffman P, Kurtzke JF, Jacobson S,  (2015) &quot;Serum proteomic analysis of a pre-symptomatic multiple sclerosis cohort.&quot; <i>Eur J Neurol</i> <b>22</b>(3):591&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25104396 25104396]; doi: [https://dx.doi.org/10.1111/ene.12534 10.1111/ene.12534]; GPMDB: [http://gpmdb.org/data/keyword/25104396 104].
#Wallin MT, Oh U, Nyalwidhe J, Semmes J, Kislinger T, Coffman P, Kurtzke JF, Jacobson S,  (2015) &quot;Serum proteomic analysis of a pre-symptomatic multiple sclerosis cohort.&quot; <i>Eur J Neurol</i> <b>22</b>(3):591&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25104396 25104396]; doi: [https://dx.doi.org/10.1111/ene.12534 10.1111/ene.12534]; GPMDB: [http://gpmdb.org/data/keyword/25104396 104].
-
#Perdomo D, Aït-Ammar N, Syan S, Sachse M, Jhingan GD, Guillén N,  (2015) &quot;Cellular and proteomics analysis of the endomembrane system from the unicellular Entamoeba histolytica.&quot; <i>J Proteomics</i> <b>112</b>:125&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25109464 25109464]; doi: [https://dx.doi.org/10.1016/j.jprot.2014.07.034 10.1016/j.jprot.2014.07.034]; GPMDB: [http://gpmdb.org/data/keyword/25109464 3].
+
#Perdomo D, Aït-Ammar N, Syan S, Sachse M, Jhingan GD, Guillén N,  (2015) &quot;Cellular and proteomics analysis of the endomembrane system from the unicellular Entamoeba histolytica.&quot; <i>J Proteomics</i> <b>112</b>:125&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25109464 25109464]; doi: [https://dx.doi.org/10.1016/j.jprot.2014.07.034 10.1016/j.jprot.2014.07.034]; GPMDB: [http://gpmdb.org/data/keyword/25109464 3].
#Talman AM, Prieto JH, Marques S, Ubaida-Mohien C, Lawniczak M, Wass MN, Xu T, Frank R, Ecker A, Stanway RS, Krishna S, Sternberg MJ, Christophides GK, Graham DR, Dinglasan RR, Yates JR 3rd, Sinden RE,  (2014) &quot;Proteomic analysis of the Plasmodium male gamete reveals the key role for glycolysis in flagellar motility.&quot; <i>Malar J</i> <b>13</b>:315; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25124718 25124718]; doi: [https://dx.doi.org/10.1186/1475-2875-13-315 10.1186/1475-2875-13-315]; GPMDB: [http://gpmdb.org/data/keyword/25124718 3].
#Talman AM, Prieto JH, Marques S, Ubaida-Mohien C, Lawniczak M, Wass MN, Xu T, Frank R, Ecker A, Stanway RS, Krishna S, Sternberg MJ, Christophides GK, Graham DR, Dinglasan RR, Yates JR 3rd, Sinden RE,  (2014) &quot;Proteomic analysis of the Plasmodium male gamete reveals the key role for glycolysis in flagellar motility.&quot; <i>Malar J</i> <b>13</b>:315; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25124718 25124718]; doi: [https://dx.doi.org/10.1186/1475-2875-13-315 10.1186/1475-2875-13-315]; GPMDB: [http://gpmdb.org/data/keyword/25124718 3].
#Carvalho AS, Ribeiro H, Voabil P, Penque D, Jensen ON, Molina H, Matthiesen R,  (2014) &quot;Global mass spectrometry and transcriptomics array based drug profiling provides novel insight into glucosamine induced endoplasmic reticulum stress.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(12):3294&ndash;307; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25128556 25128556]; doi: [https://dx.doi.org/10.1074/mcp.M113.034363 10.1074/mcp.M113.034363]; GPMDB: [http://gpmdb.org/data/keyword/25128556 18].
#Carvalho AS, Ribeiro H, Voabil P, Penque D, Jensen ON, Molina H, Matthiesen R,  (2014) &quot;Global mass spectrometry and transcriptomics array based drug profiling provides novel insight into glucosamine induced endoplasmic reticulum stress.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(12):3294&ndash;307; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25128556 25128556]; doi: [https://dx.doi.org/10.1074/mcp.M113.034363 10.1074/mcp.M113.034363]; GPMDB: [http://gpmdb.org/data/keyword/25128556 18].
-
#Surmann K, Michalik S, Hildebrandt P, Gierok P, Depke M, Brinkmann L, Bernhardt J, Salazar MG, Sun Z, Shteynberg D, Kusebauch U, Moritz RL, Wollscheid B, Lalk M, Völker U, Schmidt F,  (2014) &quot;Comparative proteome analysis reveals conserved and specific adaptation patterns of Staphylococcus aureus after internalization by different types of human non-professional phagocytic host cells.&quot; <i>Front Microbiol</i> <b>5</b>:392; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25136337 25136337]; doi: [https://dx.doi.org/10.3389/fmicb.2014.00392 10.3389/fmicb.2014.00392]; GPMDB: [http://gpmdb.org/data/keyword/25136337 71].
+
#Surmann K, Michalik S, Hildebrandt P, Gierok P, Depke M, Brinkmann L, Bernhardt J, Salazar MG, Sun Z, Shteynberg D, Kusebauch U, Moritz RL, Wollscheid B, Lalk M, Völker U, Schmidt F,  (2014) &quot;Comparative proteome analysis reveals conserved and specific adaptation patterns of Staphylococcus aureus after internalization by different types of human non-professional phagocytic host cells.&quot; <i>Front Microbiol</i> <b>5</b>:392; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25136337 25136337]; doi: [https://dx.doi.org/10.3389/fmicb.2014.00392 10.3389/fmicb.2014.00392]; GPMDB: [http://gpmdb.org/data/keyword/25136337 71].
#Moczulska KE, Pichler P, Schutzbier M, Schleiffer A, Rumpel S, Mechtler K,  (2014) &quot;Deep and precise quantification of the mouse synaptosomal proteome reveals substantial remodeling during postnatal maturation.&quot; <i>J Proteome Res</i> <b>13</b>(10):4310&ndash;24; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25157418 25157418]; doi: [https://dx.doi.org/10.1021/pr500456t 10.1021/pr500456t]; GPMDB: [http://gpmdb.org/data/keyword/25157418 100].
#Moczulska KE, Pichler P, Schutzbier M, Schleiffer A, Rumpel S, Mechtler K,  (2014) &quot;Deep and precise quantification of the mouse synaptosomal proteome reveals substantial remodeling during postnatal maturation.&quot; <i>J Proteome Res</i> <b>13</b>(10):4310&ndash;24; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25157418 25157418]; doi: [https://dx.doi.org/10.1021/pr500456t 10.1021/pr500456t]; GPMDB: [http://gpmdb.org/data/keyword/25157418 100].
#Han D, Jin J, Yu J, Kim K, Kim Y,  (2015) &quot;Integrated approach using multistep enzyme digestion, TiO2 enrichment, and database search for in-depth phosphoproteomic profiling.&quot; <i>Proteomics</i> <b>15</b>(2-3):618&ndash;23; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25159016 25159016]; doi: [https://dx.doi.org/10.1002/pmic.201400102 10.1002/pmic.201400102]; GPMDB: [http://gpmdb.org/data/keyword/25159016 36].
#Han D, Jin J, Yu J, Kim K, Kim Y,  (2015) &quot;Integrated approach using multistep enzyme digestion, TiO2 enrichment, and database search for in-depth phosphoproteomic profiling.&quot; <i>Proteomics</i> <b>15</b>(2-3):618&ndash;23; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25159016 25159016]; doi: [https://dx.doi.org/10.1002/pmic.201400102 10.1002/pmic.201400102]; GPMDB: [http://gpmdb.org/data/keyword/25159016 36].
-
#Sharma K, D'Souza RC, Tyanova S, Schaab C, Wiśniewski JR, Cox J, Mann M,  (2014) &quot;Ultradeep human phosphoproteome reveals a distinct regulatory nature of Tyr and Ser/Thr-based signaling.&quot; <i>Cell Rep</i> <b>8</b>(5):1583&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25159151 25159151]; doi: [https://dx.doi.org/10.1016/j.celrep.2014.07.036 10.1016/j.celrep.2014.07.036]; GPMDB: [http://gpmdb.org/data/keyword/25159151 276].
+
#Sharma K, D'Souza RC, Tyanova S, Schaab C, WiÅ›niewski JR, Cox J, Mann M,  (2014) &quot;Ultradeep human phosphoproteome reveals a distinct regulatory nature of Tyr and Ser/Thr-based signaling.&quot; <i>Cell Rep</i> <b>8</b>(5):1583&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25159151 25159151]; doi: [https://dx.doi.org/10.1016/j.celrep.2014.07.036 10.1016/j.celrep.2014.07.036]; GPMDB: [http://gpmdb.org/data/keyword/25159151 276].
#Bennike T, Ayturk U, Haslauer CM, Froehlich JW, Proffen BL, Barnaby O, Birkelund S, Murray MM, Warman ML, Stensballe A, Steen H,  (2014) &quot;A normative study of the synovial fluid proteome from healthy porcine knee joints.&quot; <i>J Proteome Res</i> <b>13</b>(10):4377&ndash;87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25160569 25160569]; doi: [https://dx.doi.org/10.1021/pr500587x 10.1021/pr500587x]; GPMDB: [http://gpmdb.org/data/keyword/25160569 57].
#Bennike T, Ayturk U, Haslauer CM, Froehlich JW, Proffen BL, Barnaby O, Birkelund S, Murray MM, Warman ML, Stensballe A, Steen H,  (2014) &quot;A normative study of the synovial fluid proteome from healthy porcine knee joints.&quot; <i>J Proteome Res</i> <b>13</b>(10):4377&ndash;87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25160569 25160569]; doi: [https://dx.doi.org/10.1021/pr500587x 10.1021/pr500587x]; GPMDB: [http://gpmdb.org/data/keyword/25160569 57].
-
#Reinartz M, Raupach A, Kaisers W, Gödecke A,  (2014) &quot;AKT1 and AKT2 induce distinct phosphorylation patterns in HL-1 cardiac myocytes.&quot; <i>J Proteome Res</i> <b>13</b>(10):4232&ndash;45; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25162660 25162660]; doi: [https://dx.doi.org/10.1021/pr500131g 10.1021/pr500131g]; GPMDB: [http://gpmdb.org/data/keyword/25162660 8].
+
#Reinartz M, Raupach A, Kaisers W, Gödecke A,  (2014) &quot;AKT1 and AKT2 induce distinct phosphorylation patterns in HL-1 cardiac myocytes.&quot; <i>J Proteome Res</i> <b>13</b>(10):4232&ndash;45; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25162660 25162660]; doi: [https://dx.doi.org/10.1021/pr500131g 10.1021/pr500131g]; GPMDB: [http://gpmdb.org/data/keyword/25162660 8].
-
#Dyrlund TF, Kirkegaard K, Poulsen ET, Sanggaard KW, Hindkjær JJ, Kjems J, Enghild JJ, Ingerslev HJ,  (2014) &quot;Unconditioned commercial embryo culture media contain a large variety of non-declared proteins: a comprehensive proteomics analysis.&quot; <i>Hum Reprod</i> <b>29</b>(11):2421&ndash;30; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25164020 25164020]; doi: [https://dx.doi.org/10.1093/humrep/deu220 10.1093/humrep/deu220]; GPMDB: [http://gpmdb.org/data/keyword/25164020 63].
+
#Dyrlund TF, Kirkegaard K, Poulsen ET, Sanggaard KW, Hindkjær JJ, Kjems J, Enghild JJ, Ingerslev HJ,  (2014) &quot;Unconditioned commercial embryo culture media contain a large variety of non-declared proteins: a comprehensive proteomics analysis.&quot; <i>Hum Reprod</i> <b>29</b>(11):2421&ndash;30; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25164020 25164020]; doi: [https://dx.doi.org/10.1093/humrep/deu220 10.1093/humrep/deu220]; GPMDB: [http://gpmdb.org/data/keyword/25164020 63].
#Yang J, Gupta V, Carroll KS, Liebler DC,  (2014) &quot;Site-specific mapping and quantification of protein S-sulphenylation in cells.&quot; <i>Nat Commun</i> <b>5</b>:4776; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25175731 25175731]; doi: [https://dx.doi.org/10.1038/ncomms5776 10.1038/ncomms5776]; GPMDB: [http://gpmdb.org/data/keyword/25175731 24].
#Yang J, Gupta V, Carroll KS, Liebler DC,  (2014) &quot;Site-specific mapping and quantification of protein S-sulphenylation in cells.&quot; <i>Nat Commun</i> <b>5</b>:4776; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25175731 25175731]; doi: [https://dx.doi.org/10.1038/ncomms5776 10.1038/ncomms5776]; GPMDB: [http://gpmdb.org/data/keyword/25175731 24].
-
#Liao BM, Raddatz K, Zhong L, Parker BL, Raftery MJ, Schmitz-Peiffer C,  (2014) &quot;Proteomic analysis of livers from fat-fed mice deficient in either PKCδ or PKCε identifies Htatip2 as a regulator of lipid metabolism.&quot; <i>Proteomics</i> <b>14</b>(21-22):2578&ndash;87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25175814 25175814]; doi: [https://dx.doi.org/10.1002/pmic.201400202 10.1002/pmic.201400202]; GPMDB: [http://gpmdb.org/data/keyword/25175814 222].
+
#Liao BM, Raddatz K, Zhong L, Parker BL, Raftery MJ, Schmitz-Peiffer C,  (2014) &quot;Proteomic analysis of livers from fat-fed mice deficient in either PKCδ or PKCε identifies Htatip2 as a regulator of lipid metabolism.&quot; <i>Proteomics</i> <b>14</b>(21-22):2578&ndash;87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25175814 25175814]; doi: [https://dx.doi.org/10.1002/pmic.201400202 10.1002/pmic.201400202]; GPMDB: [http://gpmdb.org/data/keyword/25175814 222].
#Van den Bossche A, Ceyssens PJ, De Smet J, Hendrix H, Bellon H, Leimer N, Wagemans J, Delattre AS, Cenens W, Aertsen A, Landuyt B, Minakhin L, Severinov K, Noben JP, Lavigne R,  (2014) &quot;Systematic identification of hypothetical bacteriophage proteins targeting key protein complexes of Pseudomonas aeruginosa.&quot; <i>J Proteome Res</i> <b>13</b>(10):4446&ndash;56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25185497 25185497]; doi: [https://dx.doi.org/10.1021/pr500796n 10.1021/pr500796n]; GPMDB: [http://gpmdb.org/data/keyword/25185497 600].
#Van den Bossche A, Ceyssens PJ, De Smet J, Hendrix H, Bellon H, Leimer N, Wagemans J, Delattre AS, Cenens W, Aertsen A, Landuyt B, Minakhin L, Severinov K, Noben JP, Lavigne R,  (2014) &quot;Systematic identification of hypothetical bacteriophage proteins targeting key protein complexes of Pseudomonas aeruginosa.&quot; <i>J Proteome Res</i> <b>13</b>(10):4446&ndash;56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25185497 25185497]; doi: [https://dx.doi.org/10.1021/pr500796n 10.1021/pr500796n]; GPMDB: [http://gpmdb.org/data/keyword/25185497 600].
#Hornburg D, Drepper C, Butter F, Meissner F, Sendtner M, Mann M,  (2014) &quot;Deep proteomic evaluation of primary and cell line motoneuron disease models delineates major differences in neuronal characteristics.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(12):3410&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25193168 25193168]; doi: [https://dx.doi.org/10.1074/mcp.M113.037291 10.1074/mcp.M113.037291]; GPMDB: [http://gpmdb.org/data/keyword/25193168 29].
#Hornburg D, Drepper C, Butter F, Meissner F, Sendtner M, Mann M,  (2014) &quot;Deep proteomic evaluation of primary and cell line motoneuron disease models delineates major differences in neuronal characteristics.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(12):3410&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25193168 25193168]; doi: [https://dx.doi.org/10.1074/mcp.M113.037291 10.1074/mcp.M113.037291]; GPMDB: [http://gpmdb.org/data/keyword/25193168 29].
#Wang X, Li Y, Wu Z, Wang H, Tan H, Peng J,  (2014) &quot;JUMP: a tag-based database search tool for peptide identification with high sensitivity and accuracy.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(12):3663&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25202125 25202125]; doi: [https://dx.doi.org/10.1074/mcp.O114.039586 10.1074/mcp.O114.039586]; GPMDB: [http://gpmdb.org/data/keyword/25202125 13].
#Wang X, Li Y, Wu Z, Wang H, Tan H, Peng J,  (2014) &quot;JUMP: a tag-based database search tool for peptide identification with high sensitivity and accuracy.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(12):3663&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25202125 25202125]; doi: [https://dx.doi.org/10.1074/mcp.O114.039586 10.1074/mcp.O114.039586]; GPMDB: [http://gpmdb.org/data/keyword/25202125 13].
#Zeiler M, Moser M, Mann M,  (2014) &quot;Copy number analysis of the murine platelet proteome spanning the complete abundance range.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(12):3435&ndash;45; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25205226 25205226]; doi: [https://dx.doi.org/10.1074/mcp.M114.038513 10.1074/mcp.M114.038513]; GPMDB: [http://gpmdb.org/data/keyword/25205226 9].
#Zeiler M, Moser M, Mann M,  (2014) &quot;Copy number analysis of the murine platelet proteome spanning the complete abundance range.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(12):3435&ndash;45; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25205226 25205226]; doi: [https://dx.doi.org/10.1074/mcp.M114.038513 10.1074/mcp.M114.038513]; GPMDB: [http://gpmdb.org/data/keyword/25205226 9].
-
#Chocu S, Evrard B, Lavigne R, Rolland AD, Aubry F, Jégou B, Chalmel F, Pineau C,  (2014) &quot;Forty-four novel protein-coding loci discovered using a proteomics informed by transcriptomics (PIT) approach in rat male germ cells.&quot; <i>Biol Reprod</i> <b>91</b>(5):123; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25210130 25210130]; doi: [https://dx.doi.org/10.1095/biolreprod.114.122416 10.1095/biolreprod.114.122416]; GPMDB: [http://gpmdb.org/data/keyword/25210130 6].
+
#Chocu S, Evrard B, Lavigne R, Rolland AD, Aubry F, Jégou B, Chalmel F, Pineau C,  (2014) &quot;Forty-four novel protein-coding loci discovered using a proteomics informed by transcriptomics (PIT) approach in rat male germ cells.&quot; <i>Biol Reprod</i> <b>91</b>(5):123; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25210130 25210130]; doi: [https://dx.doi.org/10.1095/biolreprod.114.122416 10.1095/biolreprod.114.122416]; GPMDB: [http://gpmdb.org/data/keyword/25210130 6].
#Frenk S, Oxley D, Houseley J,  (2014) &quot;The nuclear exosome is active and important during budding yeast meiosis.&quot; <i>PLoS One</i> <b>9</b>(9):e107648; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25210768 25210768]; doi: [https://dx.doi.org/10.1371/journal.pone.0107648 10.1371/journal.pone.0107648]; GPMDB: [http://gpmdb.org/data/keyword/25210768 12].
#Frenk S, Oxley D, Houseley J,  (2014) &quot;The nuclear exosome is active and important during budding yeast meiosis.&quot; <i>PLoS One</i> <b>9</b>(9):e107648; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25210768 25210768]; doi: [https://dx.doi.org/10.1371/journal.pone.0107648 10.1371/journal.pone.0107648]; GPMDB: [http://gpmdb.org/data/keyword/25210768 12].
#Laouami S, Clair G, Armengaud J, Duport C,  (2014) &quot;Proteomic evidences for rex regulation of metabolism in toxin-producing Bacillus cereus ATCC 14579.&quot; <i>PLoS One</i> <b>9</b>(9):e107354; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25216269 25216269]; doi: [https://dx.doi.org/10.1371/journal.pone.0107354 10.1371/journal.pone.0107354]; GPMDB: [http://gpmdb.org/data/keyword/25216269 12].
#Laouami S, Clair G, Armengaud J, Duport C,  (2014) &quot;Proteomic evidences for rex regulation of metabolism in toxin-producing Bacillus cereus ATCC 14579.&quot; <i>PLoS One</i> <b>9</b>(9):e107354; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25216269 25216269]; doi: [https://dx.doi.org/10.1371/journal.pone.0107354 10.1371/journal.pone.0107354]; GPMDB: [http://gpmdb.org/data/keyword/25216269 12].
#Shin J, Kim HJ, Kim G, Song M, Woo SJ, Lee ST, Kim H, Lee C,  (2014) &quot;Discovery of melanotransferrin as a serological marker of colorectal cancer by secretome analysis and quantitative proteomics.&quot; <i>J Proteome Res</i> <b>13</b>(11):4919&ndash;31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25216327 25216327]; doi: [https://dx.doi.org/10.1021/pr500790f 10.1021/pr500790f]; GPMDB: [http://gpmdb.org/data/keyword/25216327 34].
#Shin J, Kim HJ, Kim G, Song M, Woo SJ, Lee ST, Kim H, Lee C,  (2014) &quot;Discovery of melanotransferrin as a serological marker of colorectal cancer by secretome analysis and quantitative proteomics.&quot; <i>J Proteome Res</i> <b>13</b>(11):4919&ndash;31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25216327 25216327]; doi: [https://dx.doi.org/10.1021/pr500790f 10.1021/pr500790f]; GPMDB: [http://gpmdb.org/data/keyword/25216327 34].
#Hendriks IA, D'Souza RC, Yang B, Verlaan-de Vries M, Mann M, Vertegaal AC,  (2014) &quot;Uncovering global SUMOylation signaling networks in a site-specific manner.&quot; <i>Nat Struct Mol Biol</i> <b>21</b>(10):927&ndash;36; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25218447 25218447]; doi: [https://dx.doi.org/10.1038/nsmb.2890 10.1038/nsmb.2890]; GPMDB: [http://gpmdb.org/data/keyword/25218447 32].
#Hendriks IA, D'Souza RC, Yang B, Verlaan-de Vries M, Mann M, Vertegaal AC,  (2014) &quot;Uncovering global SUMOylation signaling networks in a site-specific manner.&quot; <i>Nat Struct Mol Biol</i> <b>21</b>(10):927&ndash;36; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25218447 25218447]; doi: [https://dx.doi.org/10.1038/nsmb.2890 10.1038/nsmb.2890]; GPMDB: [http://gpmdb.org/data/keyword/25218447 32].
-
#Negroni L, Taouji S, Arma D, Pallares-Lupon N, Leong K, Beausang LA, Latterich M, Bossé R, Balabaud C, Schmitter JM, Bioulac-Sage P, Zucman-Rossi J, Rosenbaum J, Chevet E,  (2014) &quot;Integrative quantitative proteomics unveils proteostasis imbalance in human hepatocellular carcinoma developed on nonfibrotic livers.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(12):3473&ndash;83; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25225353 25225353]; doi: [https://dx.doi.org/10.1074/mcp.M114.043174 10.1074/mcp.M114.043174]; GPMDB: [http://gpmdb.org/data/keyword/25225353 8].
+
#Negroni L, Taouji S, Arma D, Pallares-Lupon N, Leong K, Beausang LA, Latterich M, Bossé R, Balabaud C, Schmitter JM, Bioulac-Sage P, Zucman-Rossi J, Rosenbaum J, Chevet E,  (2014) &quot;Integrative quantitative proteomics unveils proteostasis imbalance in human hepatocellular carcinoma developed on nonfibrotic livers.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(12):3473&ndash;83; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25225353 25225353]; doi: [https://dx.doi.org/10.1074/mcp.M114.043174 10.1074/mcp.M114.043174]; GPMDB: [http://gpmdb.org/data/keyword/25225353 8].
-
#Wiśniewski JR, Hein MY, Cox J, Mann M,  (2014) &quot;A "proteomic ruler" for protein copy number and concentration estimation without spike-in standards.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(12):3497&ndash;506; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25225357 25225357]; doi: [https://dx.doi.org/10.1074/mcp.M113.037309 10.1074/mcp.M113.037309]; GPMDB: [http://gpmdb.org/data/keyword/25225357 69].
+
#WiÅ›niewski JR, Hein MY, Cox J, Mann M,  (2014) &quot;A "proteomic ruler" for protein copy number and concentration estimation without spike-in standards.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(12):3497&ndash;506; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25225357 25225357]; doi: [https://dx.doi.org/10.1074/mcp.M113.037309 10.1074/mcp.M113.037309]; GPMDB: [http://gpmdb.org/data/keyword/25225357 69].
#Adachi J, Kishida M, Watanabe S, Hashimoto Y, Fukamizu K, Tomonaga T,  (2014) &quot;Proteome-wide discovery of unknown ATP-binding proteins and kinase inhibitor target proteins using an ATP probe.&quot; <i>J Proteome Res</i> <b>13</b>(12):5461&ndash;70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25230287 25230287]; doi: [https://dx.doi.org/10.1021/pr500845u 10.1021/pr500845u]; GPMDB: [http://gpmdb.org/data/keyword/25230287 37].
#Adachi J, Kishida M, Watanabe S, Hashimoto Y, Fukamizu K, Tomonaga T,  (2014) &quot;Proteome-wide discovery of unknown ATP-binding proteins and kinase inhibitor target proteins using an ATP probe.&quot; <i>J Proteome Res</i> <b>13</b>(12):5461&ndash;70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25230287 25230287]; doi: [https://dx.doi.org/10.1021/pr500845u 10.1021/pr500845u]; GPMDB: [http://gpmdb.org/data/keyword/25230287 37].
#Alli Shaik A, Wee S, Li RH, Li Z, Carney TJ, Mathavan S, Gunaratne J,  (2014) &quot;Functional mapping of the zebrafish early embryo proteome and transcriptome.&quot; <i>J Proteome Res</i> <b>13</b>(12):5536&ndash;50; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25230361 25230361]; doi: [https://dx.doi.org/10.1021/pr5005136 10.1021/pr5005136]; GPMDB: [http://gpmdb.org/data/keyword/25230361 24].
#Alli Shaik A, Wee S, Li RH, Li Z, Carney TJ, Mathavan S, Gunaratne J,  (2014) &quot;Functional mapping of the zebrafish early embryo proteome and transcriptome.&quot; <i>J Proteome Res</i> <b>13</b>(12):5536&ndash;50; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25230361 25230361]; doi: [https://dx.doi.org/10.1021/pr5005136 10.1021/pr5005136]; GPMDB: [http://gpmdb.org/data/keyword/25230361 24].
-
#Tape CJ, Worboys JD, Sinclair J, Gourlay R, Vogt J, McMahon KM, Trost M, Lauffenburger DA, Lamont DJ, Jørgensen C,  (2014) &quot;Reproducible automated phosphopeptide enrichment using magnetic TiO2 and Ti-IMAC.&quot; <i>Anal Chem</i> <b>86</b>(20):10296&ndash;302; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25233145 25233145]; doi: [https://dx.doi.org/10.1021/ac5025842 10.1021/ac5025842]; GPMDB: [http://gpmdb.org/data/keyword/25233145 103].
+
#Tape CJ, Worboys JD, Sinclair J, Gourlay R, Vogt J, McMahon KM, Trost M, Lauffenburger DA, Lamont DJ, Jørgensen C,  (2014) &quot;Reproducible automated phosphopeptide enrichment using magnetic TiO2 and Ti-IMAC.&quot; <i>Anal Chem</i> <b>86</b>(20):10296&ndash;302; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25233145 25233145]; doi: [https://dx.doi.org/10.1021/ac5025842 10.1021/ac5025842]; GPMDB: [http://gpmdb.org/data/keyword/25233145 103].
#Groessl M, Slany A, Bileck A, Gloessmann K, Kreutz D, Jaeger W, Pfeiler G, Gerner C,  (2014) &quot;Proteome profiling of breast cancer biopsies reveals a wound healing signature of cancer-associated fibroblasts.&quot; <i>J Proteome Res</i> <b>13</b>(11):4773&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25238572 25238572]; doi: [https://dx.doi.org/10.1021/pr500727h 10.1021/pr500727h]; GPMDB: [http://gpmdb.org/data/keyword/25238572 281].
#Groessl M, Slany A, Bileck A, Gloessmann K, Kreutz D, Jaeger W, Pfeiler G, Gerner C,  (2014) &quot;Proteome profiling of breast cancer biopsies reveals a wound healing signature of cancer-associated fibroblasts.&quot; <i>J Proteome Res</i> <b>13</b>(11):4773&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25238572 25238572]; doi: [https://dx.doi.org/10.1021/pr500727h 10.1021/pr500727h]; GPMDB: [http://gpmdb.org/data/keyword/25238572 281].
#Song Z, Chen L, Wang J, Lu Y, Jiang W, Zhang W,  (2014) &quot;A transcriptional regulator Sll0794 regulates tolerance to biofuel ethanol in photosynthetic Synechocystis sp. PCC 6803.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(12):3519&ndash;32; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25239498 25239498]; doi: [https://dx.doi.org/10.1074/mcp.M113.035675 10.1074/mcp.M113.035675]; GPMDB: [http://gpmdb.org/data/keyword/25239498 21].
#Song Z, Chen L, Wang J, Lu Y, Jiang W, Zhang W,  (2014) &quot;A transcriptional regulator Sll0794 regulates tolerance to biofuel ethanol in photosynthetic Synechocystis sp. PCC 6803.&quot; <i>Mol Cell Proteomics</i> <b>13</b>(12):3519&ndash;32; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25239498 25239498]; doi: [https://dx.doi.org/10.1074/mcp.M113.035675 10.1074/mcp.M113.035675]; GPMDB: [http://gpmdb.org/data/keyword/25239498 21].
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#Yin X, Sakata K, Komatsu S,  (2014) &quot;Phosphoproteomics reveals the effect of ethylene in soybean root under flooding stress.&quot; <i>J Proteome Res</i> <b>13</b>(12):5618&ndash;34; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25316100 25316100]; doi: [https://dx.doi.org/10.1021/pr500621c 10.1021/pr500621c]; GPMDB: [http://gpmdb.org/data/keyword/25316100 54].
#Yin X, Sakata K, Komatsu S,  (2014) &quot;Phosphoproteomics reveals the effect of ethylene in soybean root under flooding stress.&quot; <i>J Proteome Res</i> <b>13</b>(12):5618&ndash;34; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25316100 25316100]; doi: [https://dx.doi.org/10.1021/pr500621c 10.1021/pr500621c]; GPMDB: [http://gpmdb.org/data/keyword/25316100 54].
#Gopinath RK, You ST, Chien KY, Swamy KB, Yu JS, Schuyler SC, Leu JY,  (2014) &quot;The Hsp90-dependent proteome is conserved and enriched for hub proteins with high levels of protein-protein connectivity.&quot; <i>Genome Biol Evol</i> <b>6</b>(10):2851&ndash;65; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25316598 25316598]; doi: [https://dx.doi.org/10.1093/gbe/evu226 10.1093/gbe/evu226]; GPMDB: [http://gpmdb.org/data/keyword/25316598 2].
#Gopinath RK, You ST, Chien KY, Swamy KB, Yu JS, Schuyler SC, Leu JY,  (2014) &quot;The Hsp90-dependent proteome is conserved and enriched for hub proteins with high levels of protein-protein connectivity.&quot; <i>Genome Biol Evol</i> <b>6</b>(10):2851&ndash;65; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25316598 25316598]; doi: [https://dx.doi.org/10.1093/gbe/evu226 10.1093/gbe/evu226]; GPMDB: [http://gpmdb.org/data/keyword/25316598 2].
-
#Herbst FA, Søndergaard MT, Kjeldal H, Stensballe A, Nielsen PH, Dueholm MS,  (2015) &quot;Major proteomic changes associated with amyloid-induced biofilm formation in Pseudomonas aeruginosa PAO1.&quot; <i>J Proteome Res</i> <b>14</b>(1):72&ndash;81; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25317949 25317949]; doi: [https://dx.doi.org/10.1021/pr500938x 10.1021/pr500938x]; GPMDB: [http://gpmdb.org/data/keyword/25317949 282].
+
#Herbst FA, Søndergaard MT, Kjeldal H, Stensballe A, Nielsen PH, Dueholm MS,  (2015) &quot;Major proteomic changes associated with amyloid-induced biofilm formation in Pseudomonas aeruginosa PAO1.&quot; <i>J Proteome Res</i> <b>14</b>(1):72&ndash;81; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25317949 25317949]; doi: [https://dx.doi.org/10.1021/pr500938x 10.1021/pr500938x]; GPMDB: [http://gpmdb.org/data/keyword/25317949 282].
#Syed N, Chavan S, Sahasrabuddhe NA, Renuse S, Sathe G, Nanjappa V, Radhakrishnan A, Raja R, Pinto SM, Srinivasan A, Prasad TS, Srikumar K, Gowda H, Santosh V, Sidransky D, Califano JA, Pandey A, Chatterjee A,  (2015) &quot;Silencing of high-mobility group box 2 (HMGB2) modulates cisplatin and 5-fluorouracil sensitivity in head and neck squamous cell carcinoma.&quot; <i>Proteomics</i> <b>15</b>(2-3):383&ndash;93; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25327479 25327479]; doi: [https://dx.doi.org/10.1002/pmic.201400338 10.1002/pmic.201400338]; GPMDB: [http://gpmdb.org/data/keyword/25327479 1].
#Syed N, Chavan S, Sahasrabuddhe NA, Renuse S, Sathe G, Nanjappa V, Radhakrishnan A, Raja R, Pinto SM, Srinivasan A, Prasad TS, Srikumar K, Gowda H, Santosh V, Sidransky D, Califano JA, Pandey A, Chatterjee A,  (2015) &quot;Silencing of high-mobility group box 2 (HMGB2) modulates cisplatin and 5-fluorouracil sensitivity in head and neck squamous cell carcinoma.&quot; <i>Proteomics</i> <b>15</b>(2-3):383&ndash;93; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25327479 25327479]; doi: [https://dx.doi.org/10.1002/pmic.201400338 10.1002/pmic.201400338]; GPMDB: [http://gpmdb.org/data/keyword/25327479 1].
-
#Helgeland E, Breivik LE, Vaudel M, Svendsen ØS, Garberg H, Nordrehaug JE, Berven FS, Jonassen AK,  (2014) &quot;Exploring the human plasma proteome for humoral mediators of remote ischemic preconditioning--a word of caution.&quot; <i>PLoS One</i> <b>9</b>(10):e109279; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25333471 25333471]; doi: [https://dx.doi.org/10.1371/journal.pone.0109279 10.1371/journal.pone.0109279]; GPMDB: [http://gpmdb.org/data/keyword/25333471 146].
+
#Helgeland E, Breivik LE, Vaudel M, Svendsen ØS, Garberg H, Nordrehaug JE, Berven FS, Jonassen AK,  (2014) &quot;Exploring the human plasma proteome for humoral mediators of remote ischemic preconditioning--a word of caution.&quot; <i>PLoS One</i> <b>9</b>(10):e109279; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25333471 25333471]; doi: [https://dx.doi.org/10.1371/journal.pone.0109279 10.1371/journal.pone.0109279]; GPMDB: [http://gpmdb.org/data/keyword/25333471 146].
#Batth TS, Francavilla C, Olsen JV,  (2014) &quot;Off-line high-pH reversed-phase fractionation for in-depth phosphoproteomics.&quot; <i>J Proteome Res</i> <b>13</b>(12):6176&ndash;86; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25338131 25338131]; doi: [https://dx.doi.org/10.1021/pr500893m 10.1021/pr500893m]; GPMDB: [http://gpmdb.org/data/keyword/25338131 11].
#Batth TS, Francavilla C, Olsen JV,  (2014) &quot;Off-line high-pH reversed-phase fractionation for in-depth phosphoproteomics.&quot; <i>J Proteome Res</i> <b>13</b>(12):6176&ndash;86; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25338131 25338131]; doi: [https://dx.doi.org/10.1021/pr500893m 10.1021/pr500893m]; GPMDB: [http://gpmdb.org/data/keyword/25338131 11].
#Renuse S, Madugundu AK, Kumar P, Nair BG, Gowda H, Prasad TS, Pandey A,  (2014) &quot;Proteomic analysis and genome annotation of Pichia pastoris, a recombinant protein expression host.&quot; <i>Proteomics</i> <b>14</b>(23-24):2769&ndash;79; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25346215 25346215]; doi: [https://dx.doi.org/10.1002/pmic.201400267 10.1002/pmic.201400267]; GPMDB: [http://gpmdb.org/data/keyword/25346215 105].
#Renuse S, Madugundu AK, Kumar P, Nair BG, Gowda H, Prasad TS, Pandey A,  (2014) &quot;Proteomic analysis and genome annotation of Pichia pastoris, a recombinant protein expression host.&quot; <i>Proteomics</i> <b>14</b>(23-24):2769&ndash;79; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25346215 25346215]; doi: [https://dx.doi.org/10.1002/pmic.201400267 10.1002/pmic.201400267]; GPMDB: [http://gpmdb.org/data/keyword/25346215 105].
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#Bourderioux M, Nguyen-Khoa T, Chhuon C, Jeanson L, Tondelier D, Walczak M, Ollero M, Bekri S, Knebelmann B, Escudier E, Escudier B, Edelman A, Guerrera IC,  (2015) &quot;A new workflow for proteomic analysis of urinary exosomes and assessment in cystinuria patients.&quot; <i>J Proteome Res</i> <b>14</b>(1):567&ndash;77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25365230 25365230]; doi: [https://dx.doi.org/10.1021/pr501003q 10.1021/pr501003q]; GPMDB: [http://gpmdb.org/data/keyword/25365230 340].
#Bourderioux M, Nguyen-Khoa T, Chhuon C, Jeanson L, Tondelier D, Walczak M, Ollero M, Bekri S, Knebelmann B, Escudier E, Escudier B, Edelman A, Guerrera IC,  (2015) &quot;A new workflow for proteomic analysis of urinary exosomes and assessment in cystinuria patients.&quot; <i>J Proteome Res</i> <b>14</b>(1):567&ndash;77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25365230 25365230]; doi: [https://dx.doi.org/10.1021/pr501003q 10.1021/pr501003q]; GPMDB: [http://gpmdb.org/data/keyword/25365230 340].
#Pinto SM, Nirujogi RS, Rojas PL, Patil AH, Manda SS, Subbannayya Y, Roa JC, Chatterjee A, Prasad TS, Pandey A,  (2015) &quot;Quantitative phosphoproteomic analysis of IL-33-mediated signaling.&quot; <i>Proteomics</i> <b>15</b>(2-3):532&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25367039 25367039]; doi: [https://dx.doi.org/10.1002/pmic.201400303 10.1002/pmic.201400303]; GPMDB: [http://gpmdb.org/data/keyword/25367039 4].
#Pinto SM, Nirujogi RS, Rojas PL, Patil AH, Manda SS, Subbannayya Y, Roa JC, Chatterjee A, Prasad TS, Pandey A,  (2015) &quot;Quantitative phosphoproteomic analysis of IL-33-mediated signaling.&quot; <i>Proteomics</i> <b>15</b>(2-3):532&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25367039 25367039]; doi: [https://dx.doi.org/10.1002/pmic.201400303 10.1002/pmic.201400303]; GPMDB: [http://gpmdb.org/data/keyword/25367039 4].
-
#Cubeñas-Potts C, Srikumar T, Lee C, Osula O, Subramonian D, Zhang XD, Cotter RJ, Raught B, Matunis MJ,  (2015) &quot;Identification of SUMO-2/3-modified proteins associated with mitotic chromosomes.&quot; <i>Proteomics</i> <b>15</b>(4):763&ndash;72; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25367092 25367092]; doi: [https://dx.doi.org/10.1002/pmic.201400400 10.1002/pmic.201400400]; GPMDB: [http://gpmdb.org/data/keyword/25367092 8].
+
#Cubeñas-Potts C, Srikumar T, Lee C, Osula O, Subramonian D, Zhang XD, Cotter RJ, Raught B, Matunis MJ,  (2015) &quot;Identification of SUMO-2/3-modified proteins associated with mitotic chromosomes.&quot; <i>Proteomics</i> <b>15</b>(4):763&ndash;72; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25367092 25367092]; doi: [https://dx.doi.org/10.1002/pmic.201400400 10.1002/pmic.201400400]; GPMDB: [http://gpmdb.org/data/keyword/25367092 8].
-
#Pfeiffer MJ, Taher L, Drexler H, Suzuki Y, Makałowski W, Schwarzer C, Wang B, Fuellen G, Boiani M,  (2015) &quot;Differences in embryo quality are associated with differences in oocyte composition: a proteomic study in inbred mice.&quot; <i>Proteomics</i> <b>15</b>(4):675&ndash;87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25367296 25367296]; doi: [https://dx.doi.org/10.1002/pmic.201400334 10.1002/pmic.201400334]; GPMDB: [http://gpmdb.org/data/keyword/25367296 4].
+
#Pfeiffer MJ, Taher L, Drexler H, Suzuki Y, MakaÅ‚owski W, Schwarzer C, Wang B, Fuellen G, Boiani M,  (2015) &quot;Differences in embryo quality are associated with differences in oocyte composition: a proteomic study in inbred mice.&quot; <i>Proteomics</i> <b>15</b>(4):675&ndash;87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25367296 25367296]; doi: [https://dx.doi.org/10.1002/pmic.201400334 10.1002/pmic.201400334]; GPMDB: [http://gpmdb.org/data/keyword/25367296 4].
#Lamoliatte F, Caron D, Durette C, Mahrouche L, Maroui MA, Caron-Lizotte O, Bonneil E, Chelbi-Alix MK, Thibault P,  (2014) &quot;Large-scale analysis of lysine SUMOylation by SUMO remnant immunoaffinity profiling.&quot; <i>Nat Commun</i> <b>5</b>:5409; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25391492 25391492]; doi: [https://dx.doi.org/10.1038/ncomms6409 10.1038/ncomms6409]; GPMDB: [http://gpmdb.org/data/keyword/25391492 6].
#Lamoliatte F, Caron D, Durette C, Mahrouche L, Maroui MA, Caron-Lizotte O, Bonneil E, Chelbi-Alix MK, Thibault P,  (2014) &quot;Large-scale analysis of lysine SUMOylation by SUMO remnant immunoaffinity profiling.&quot; <i>Nat Commun</i> <b>5</b>:5409; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25391492 25391492]; doi: [https://dx.doi.org/10.1038/ncomms6409 10.1038/ncomms6409]; GPMDB: [http://gpmdb.org/data/keyword/25391492 6].
#Ruprecht B, Koch H, Medard G, Mundt M, Kuster B, Lemeer S,  (2015) &quot;Comprehensive and reproducible phosphopeptide enrichment using iron immobilized metal ion affinity chromatography (Fe-IMAC) columns.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(1):205&ndash;15; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25394399 25394399]; doi: [https://dx.doi.org/10.1074/mcp.M114.043109 10.1074/mcp.M114.043109]; GPMDB: [http://gpmdb.org/data/keyword/25394399 152].
#Ruprecht B, Koch H, Medard G, Mundt M, Kuster B, Lemeer S,  (2015) &quot;Comprehensive and reproducible phosphopeptide enrichment using iron immobilized metal ion affinity chromatography (Fe-IMAC) columns.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(1):205&ndash;15; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25394399 25394399]; doi: [https://dx.doi.org/10.1074/mcp.M114.043109 10.1074/mcp.M114.043109]; GPMDB: [http://gpmdb.org/data/keyword/25394399 152].
-
#Götzke H, Muheim C, Altelaar AF, Heck AJ, Maddalo G, Daley DO,  (2015) &quot;Identification of putative substrates for the periplasmic chaperone YfgM in Escherichia coli using quantitative proteomics.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(1):216&ndash;26; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25403562 25403562]; doi: [https://dx.doi.org/10.1074/mcp.M114.043216 10.1074/mcp.M114.043216]; GPMDB: [http://gpmdb.org/data/keyword/25403562 9].
+
#Götzke H, Muheim C, Altelaar AF, Heck AJ, Maddalo G, Daley DO,  (2015) &quot;Identification of putative substrates for the periplasmic chaperone YfgM in Escherichia coli using quantitative proteomics.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(1):216&ndash;26; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25403562 25403562]; doi: [https://dx.doi.org/10.1074/mcp.M114.043216 10.1074/mcp.M114.043216]; GPMDB: [http://gpmdb.org/data/keyword/25403562 9].
#Nirujogi RS, Wright JD Jr, Manda SS, Zhong J, Na CH, Meyerhoff J, Benton B, Jabbour R, Willis K, Kim MS, Pandey A, Sekowski JW,  (2015) &quot;Phosphoproteomic analysis reveals compensatory effects in the piriform cortex of VX nerve agent exposed rats.&quot; <i>Proteomics</i> <b>15</b>(2-3):487&ndash;99; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25403869 25403869]; doi: [https://dx.doi.org/10.1002/pmic.201400371 10.1002/pmic.201400371]; GPMDB: [http://gpmdb.org/data/keyword/25403869 12].
#Nirujogi RS, Wright JD Jr, Manda SS, Zhong J, Na CH, Meyerhoff J, Benton B, Jabbour R, Willis K, Kim MS, Pandey A, Sekowski JW,  (2015) &quot;Phosphoproteomic analysis reveals compensatory effects in the piriform cortex of VX nerve agent exposed rats.&quot; <i>Proteomics</i> <b>15</b>(2-3):487&ndash;99; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25403869 25403869]; doi: [https://dx.doi.org/10.1002/pmic.201400371 10.1002/pmic.201400371]; GPMDB: [http://gpmdb.org/data/keyword/25403869 12].
#Sap KA, Bezstarosti K, Dekkers DH, van den Hout M, van Ijcken W, Rijkers E, Demmers JA,  (2015) &quot;Global quantitative proteomics reveals novel factors in the ecdysone signaling pathway in Drosophila melanogaster.&quot; <i>Proteomics</i> <b>15</b>(4):725&ndash;38; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25403936 25403936]; doi: [https://dx.doi.org/10.1002/pmic.201400308 10.1002/pmic.201400308]; GPMDB: [http://gpmdb.org/data/keyword/25403936 8].
#Sap KA, Bezstarosti K, Dekkers DH, van den Hout M, van Ijcken W, Rijkers E, Demmers JA,  (2015) &quot;Global quantitative proteomics reveals novel factors in the ecdysone signaling pathway in Drosophila melanogaster.&quot; <i>Proteomics</i> <b>15</b>(4):725&ndash;38; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25403936 25403936]; doi: [https://dx.doi.org/10.1002/pmic.201400308 10.1002/pmic.201400308]; GPMDB: [http://gpmdb.org/data/keyword/25403936 8].
#Zhang X, Belkina N, Jacob HK, Maity T, Biswas R, Venugopalan A, Shaw PG, Kim MS, Chaerkady R, Pandey A, Guha U,  (2015) &quot;Identifying novel targets of oncogenic EGF receptor signaling in lung cancer through global phosphoproteomics.&quot; <i>Proteomics</i> <b>15</b>(2-3):340&ndash;55; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25404012 25404012]; doi: [https://dx.doi.org/10.1002/pmic.201400315 10.1002/pmic.201400315]; GPMDB: [http://gpmdb.org/data/keyword/25404012 73].
#Zhang X, Belkina N, Jacob HK, Maity T, Biswas R, Venugopalan A, Shaw PG, Kim MS, Chaerkady R, Pandey A, Guha U,  (2015) &quot;Identifying novel targets of oncogenic EGF receptor signaling in lung cancer through global phosphoproteomics.&quot; <i>Proteomics</i> <b>15</b>(2-3):340&ndash;55; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25404012 25404012]; doi: [https://dx.doi.org/10.1002/pmic.201400315 10.1002/pmic.201400315]; GPMDB: [http://gpmdb.org/data/keyword/25404012 73].
#Loroch S, Zahedi RP, Sickmann A,  (2015) &quot;Highly sensitive phosphoproteomics by tailoring solid-phase extraction to electrostatic repulsion-hydrophilic interaction chromatography.&quot; <i>Anal Chem</i> <b>87</b>(3):1596&ndash;604; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25405705 25405705]; doi: [https://dx.doi.org/10.1021/ac502708m 10.1021/ac502708m]; GPMDB: [http://gpmdb.org/data/keyword/25405705 84].
#Loroch S, Zahedi RP, Sickmann A,  (2015) &quot;Highly sensitive phosphoproteomics by tailoring solid-phase extraction to electrostatic repulsion-hydrophilic interaction chromatography.&quot; <i>Anal Chem</i> <b>87</b>(3):1596&ndash;604; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25405705 25405705]; doi: [https://dx.doi.org/10.1021/ac502708m 10.1021/ac502708m]; GPMDB: [http://gpmdb.org/data/keyword/25405705 84].
-
#Chawade A, Sandin M, Teleman J, Malmström J, Levander F,  (2015) &quot;Data processing has major impact on the outcome of quantitative label-free LC-MS analysis.&quot; <i>J Proteome Res</i> <b>14</b>(2):676&ndash;87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25407311 25407311]; doi: [https://dx.doi.org/10.1021/pr500665j 10.1021/pr500665j]; GPMDB: [http://gpmdb.org/data/keyword/25407311 12].
+
#Chawade A, Sandin M, Teleman J, Malmström J, Levander F,  (2015) &quot;Data processing has major impact on the outcome of quantitative label-free LC-MS analysis.&quot; <i>J Proteome Res</i> <b>14</b>(2):676&ndash;87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25407311 25407311]; doi: [https://dx.doi.org/10.1021/pr500665j 10.1021/pr500665j]; GPMDB: [http://gpmdb.org/data/keyword/25407311 12].
#Zhang P, Dufresne C, Turner R, Ferri S, Venkatraman V, Karani R, Lutty GA, Van Eyk JE, Semba RD,  (2015) &quot;The proteome of human retina.&quot; <i>Proteomics</i> <b>15</b>(4):836&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25407473 25407473]; doi: [https://dx.doi.org/10.1002/pmic.201400397 10.1002/pmic.201400397]; GPMDB: [http://gpmdb.org/data/keyword/25407473 60].
#Zhang P, Dufresne C, Turner R, Ferri S, Venkatraman V, Karani R, Lutty GA, Van Eyk JE, Semba RD,  (2015) &quot;The proteome of human retina.&quot; <i>Proteomics</i> <b>15</b>(4):836&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25407473 25407473]; doi: [https://dx.doi.org/10.1002/pmic.201400397 10.1002/pmic.201400397]; GPMDB: [http://gpmdb.org/data/keyword/25407473 60].
-
#Gruber AR, Martin G, Müller P, Schmidt A, Gruber AJ, Gumienny R, Mittal N, Jayachandran R, Pieters J, Keller W, van Nimwegen E, Zavolan M,  (2014) &quot;Global 3' UTR shortening has a limited effect on protein abundance in proliferating T cells.&quot; <i>Nat Commun</i> <b>5</b>:5465; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25413384 25413384]; doi: [https://dx.doi.org/10.1038/ncomms6465 10.1038/ncomms6465]; GPMDB: [http://gpmdb.org/data/keyword/25413384 13].
+
#Gruber AR, Martin G, Müller P, Schmidt A, Gruber AJ, Gumienny R, Mittal N, Jayachandran R, Pieters J, Keller W, van Nimwegen E, Zavolan M,  (2014) &quot;Global 3' UTR shortening has a limited effect on protein abundance in proliferating T cells.&quot; <i>Nat Commun</i> <b>5</b>:5465; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25413384 25413384]; doi: [https://dx.doi.org/10.1038/ncomms6465 10.1038/ncomms6465]; GPMDB: [http://gpmdb.org/data/keyword/25413384 13].
-
#Huesgen PF, Lange PF, Rogers LD, Solis N, Eckhard U, Kleifeld O, Goulas T, Gomis-Rüth FX, Overall CM,  (2015) &quot;LysargiNase mirrors trypsin for protein C-terminal and methylation-site identification.&quot; <i>Nat Methods</i> <b>12</b>(1):55&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25419962 25419962]; doi: [https://dx.doi.org/10.1038/nmeth.3177 10.1038/nmeth.3177]; GPMDB: [http://gpmdb.org/data/keyword/25419962 60].
+
#Huesgen PF, Lange PF, Rogers LD, Solis N, Eckhard U, Kleifeld O, Goulas T, Gomis-Rüth FX, Overall CM,  (2015) &quot;LysargiNase mirrors trypsin for protein C-terminal and methylation-site identification.&quot; <i>Nat Methods</i> <b>12</b>(1):55&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25419962 25419962]; doi: [https://dx.doi.org/10.1038/nmeth.3177 10.1038/nmeth.3177]; GPMDB: [http://gpmdb.org/data/keyword/25419962 60].
-
#Rinschen MM, Pahmeyer C, Pisitkun T, Schnell N, Wu X, Maaß M, Bartram MP, Lamkemeyer T, Schermer B, Benzing T, Brinkkoetter PT,  (2015) &quot;Comparative phosphoproteomic analysis of mammalian glomeruli reveals conserved podocin C-terminal phosphorylation as a determinant of slit diaphragm complex architecture.&quot; <i>Proteomics</i> <b>15</b>(7):1326&ndash;31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25420462 25420462]; doi: [https://dx.doi.org/10.1002/pmic.201400235 10.1002/pmic.201400235]; GPMDB: [http://gpmdb.org/data/keyword/25420462 40].
+
#Rinschen MM, Pahmeyer C, Pisitkun T, Schnell N, Wu X, Maaß M, Bartram MP, Lamkemeyer T, Schermer B, Benzing T, Brinkkoetter PT,  (2015) &quot;Comparative phosphoproteomic analysis of mammalian glomeruli reveals conserved podocin C-terminal phosphorylation as a determinant of slit diaphragm complex architecture.&quot; <i>Proteomics</i> <b>15</b>(7):1326&ndash;31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25420462 25420462]; doi: [https://dx.doi.org/10.1002/pmic.201400235 10.1002/pmic.201400235]; GPMDB: [http://gpmdb.org/data/keyword/25420462 40].
#Li L, Wei Y, To C, Zhu CQ, Tong J, Pham NA, Taylor P, Ignatchenko V, Ignatchenko A, Zhang W, Wang D, Yanagawa N, Li M, Pintilie M, Liu G, Muthuswamy L, Shepherd FA, Tsao MS, Kislinger T, Moran MF,  (2014) &quot;Integrated omic analysis of lung cancer reveals metabolism proteome signatures with prognostic impact.&quot; <i>Nat Commun</i> <b>5</b>:5469; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25429762 25429762]; doi: [https://dx.doi.org/10.1038/ncomms6469 10.1038/ncomms6469]; GPMDB: [http://gpmdb.org/data/keyword/25429762 33].
#Li L, Wei Y, To C, Zhu CQ, Tong J, Pham NA, Taylor P, Ignatchenko V, Ignatchenko A, Zhang W, Wang D, Yanagawa N, Li M, Pintilie M, Liu G, Muthuswamy L, Shepherd FA, Tsao MS, Kislinger T, Moran MF,  (2014) &quot;Integrated omic analysis of lung cancer reveals metabolism proteome signatures with prognostic impact.&quot; <i>Nat Commun</i> <b>5</b>:5469; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25429762 25429762]; doi: [https://dx.doi.org/10.1038/ncomms6469 10.1038/ncomms6469]; GPMDB: [http://gpmdb.org/data/keyword/25429762 33].
#Hagen L, Sharma A, Aas PA, Slupphaug G,  (2015) &quot;Off-target responses in the HeLa proteome subsequent to transient plasmid-mediated transfection.&quot; <i>Biochim Biophys Acta</i> <b>1854</b>(1):84&ndash;90; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25448019 25448019]; doi: [https://dx.doi.org/10.1016/j.bbapap.2014.10.016 10.1016/j.bbapap.2014.10.016]; GPMDB: [http://gpmdb.org/data/keyword/25448019 27].
#Hagen L, Sharma A, Aas PA, Slupphaug G,  (2015) &quot;Off-target responses in the HeLa proteome subsequent to transient plasmid-mediated transfection.&quot; <i>Biochim Biophys Acta</i> <b>1854</b>(1):84&ndash;90; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25448019 25448019]; doi: [https://dx.doi.org/10.1016/j.bbapap.2014.10.016 10.1016/j.bbapap.2014.10.016]; GPMDB: [http://gpmdb.org/data/keyword/25448019 27].
-
#Wiśniewski JR, Koepsell H, Gizak A, Rakus D,  (2015) &quot;Absolute protein quantification allows differentiation of cell-specific metabolic routes and functions.&quot; <i>Proteomics</i> <b>15</b>(7):1316&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25475432 25475432]; doi: [https://dx.doi.org/10.1002/pmic.201400456 10.1002/pmic.201400456]; GPMDB: [http://gpmdb.org/data/keyword/25475432 44].
+
#WiÅ›niewski JR, Koepsell H, Gizak A, Rakus D,  (2015) &quot;Absolute protein quantification allows differentiation of cell-specific metabolic routes and functions.&quot; <i>Proteomics</i> <b>15</b>(7):1316&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25475432 25475432]; doi: [https://dx.doi.org/10.1002/pmic.201400456 10.1002/pmic.201400456]; GPMDB: [http://gpmdb.org/data/keyword/25475432 44].
#Schnell G, Boeuf A, Jaulhac B, Boulanger N, Collin E, Barthel C, De Martino S, Ehret-Sabatier L,  (2015) &quot;Proteomic analysis of three Borrelia burgdorferi sensu lato native species and disseminating clones: relevance for Lyme vaccine design.&quot; <i>Proteomics</i> <b>15</b>(7):1280&ndash;90; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25475896 25475896]; doi: [https://dx.doi.org/10.1002/pmic.201400177 10.1002/pmic.201400177]; GPMDB: [http://gpmdb.org/data/keyword/25475896 6].
#Schnell G, Boeuf A, Jaulhac B, Boulanger N, Collin E, Barthel C, De Martino S, Ehret-Sabatier L,  (2015) &quot;Proteomic analysis of three Borrelia burgdorferi sensu lato native species and disseminating clones: relevance for Lyme vaccine design.&quot; <i>Proteomics</i> <b>15</b>(7):1280&ndash;90; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25475896 25475896]; doi: [https://dx.doi.org/10.1002/pmic.201400177 10.1002/pmic.201400177]; GPMDB: [http://gpmdb.org/data/keyword/25475896 6].
#Yang X, Liu F, Yan Y, Zhou T, Guo Y, Sun G, Zhou Z, Zhang W, Guo X, Sha J,  (2015) &quot;Proteomic analysis of N-glycosylation of human seminal plasma.&quot; <i>Proteomics</i> <b>15</b>(7):1255&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25476145 25476145]; doi: [https://dx.doi.org/10.1002/pmic.201400203 10.1002/pmic.201400203]; GPMDB: [http://gpmdb.org/data/keyword/25476145 3].
#Yang X, Liu F, Yan Y, Zhou T, Guo Y, Sun G, Zhou Z, Zhang W, Guo X, Sha J,  (2015) &quot;Proteomic analysis of N-glycosylation of human seminal plasma.&quot; <i>Proteomics</i> <b>15</b>(7):1255&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25476145 25476145]; doi: [https://dx.doi.org/10.1002/pmic.201400203 10.1002/pmic.201400203]; GPMDB: [http://gpmdb.org/data/keyword/25476145 3].
Line 762: Line 762:
#Vaga S, Bernardo-Faura M, Cokelaer T, Maiolica A, Barnes CA, Gillet LC, Hegemann B, van Drogen F, Sharifian H, Klipp E, Peter M, Saez-Rodriguez J, Aebersold R,  (2014) &quot;Phosphoproteomic analyses reveal novel cross-modulation mechanisms between two signaling pathways in yeast.&quot; <i>Mol Syst Biol</i> <b>10</b>:767; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25492886 25492886]; GPMDB: [http://gpmdb.org/data/keyword/25492886 108].
#Vaga S, Bernardo-Faura M, Cokelaer T, Maiolica A, Barnes CA, Gillet LC, Hegemann B, van Drogen F, Sharifian H, Klipp E, Peter M, Saez-Rodriguez J, Aebersold R,  (2014) &quot;Phosphoproteomic analyses reveal novel cross-modulation mechanisms between two signaling pathways in yeast.&quot; <i>Mol Syst Biol</i> <b>10</b>:767; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25492886 25492886]; GPMDB: [http://gpmdb.org/data/keyword/25492886 108].
#Selvam RM, Nithya R, Devi PN, Shree RS, Nila MV, Demonte NL, Thangavel C, Maheshwari JJ, Lalitha P, Prajna NV, Dharmalingam K,  (2015) &quot;Exoproteome of Aspergillus flavus corneal isolates and saprophytes: identification of proteoforms of an oversecreted alkaline protease.&quot; <i>J Proteomics</i> <b>115</b>:23&ndash;35; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25497218 25497218]; doi: [https://dx.doi.org/10.1016/j.jprot.2014.11.017 10.1016/j.jprot.2014.11.017]; GPMDB: [http://gpmdb.org/data/keyword/25497218 10].
#Selvam RM, Nithya R, Devi PN, Shree RS, Nila MV, Demonte NL, Thangavel C, Maheshwari JJ, Lalitha P, Prajna NV, Dharmalingam K,  (2015) &quot;Exoproteome of Aspergillus flavus corneal isolates and saprophytes: identification of proteoforms of an oversecreted alkaline protease.&quot; <i>J Proteomics</i> <b>115</b>:23&ndash;35; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25497218 25497218]; doi: [https://dx.doi.org/10.1016/j.jprot.2014.11.017 10.1016/j.jprot.2014.11.017]; GPMDB: [http://gpmdb.org/data/keyword/25497218 10].
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#Bergseng E, Dørum S, Arntzen , Nielsen M, Nygård S, Buus S, de Souza GA, Sollid LM,  (2015) &quot;Different binding motifs of the celiac disease-associated HLA molecules DQ2.5, DQ2.2, and DQ7.5 revealed by relative quantitative proteomics of endogenous peptide repertoires.&quot; <i>Immunogenetics</i> <b>67</b>(2):73&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25502872 25502872]; doi: [https://dx.doi.org/10.1007/s00251-014-0819-9 10.1007/s00251-014-0819-9]; GPMDB: [http://gpmdb.org/data/keyword/25502872 51].
+
#Bergseng E, Dørum S, Arntzen MØ, Nielsen M, NygÃ¥rd S, Buus S, de Souza GA, Sollid LM,  (2015) &quot;Different binding motifs of the celiac disease-associated HLA molecules DQ2.5, DQ2.2, and DQ7.5 revealed by relative quantitative proteomics of endogenous peptide repertoires.&quot; <i>Immunogenetics</i> <b>67</b>(2):73&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25502872 25502872]; doi: [https://dx.doi.org/10.1007/s00251-014-0819-9 10.1007/s00251-014-0819-9]; GPMDB: [http://gpmdb.org/data/keyword/25502872 51].
-
#Guo M, Härtlova A, Dill BD, Prescott AR, Gierliński M, Trost M,  (2015) &quot;High-resolution quantitative proteome analysis reveals substantial differences between phagosomes of RAW 264.7 and bone marrow derived macrophages.&quot; <i>Proteomics</i> <b>15</b>(18):3169&ndash;74; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25504905 25504905]; doi: [https://dx.doi.org/10.1002/pmic.201400431 10.1002/pmic.201400431]; GPMDB: [http://gpmdb.org/data/keyword/25504905 6].
+
#Guo M, Härtlova A, Dill BD, Prescott AR, GierliÅ„ski M, Trost M,  (2015) &quot;High-resolution quantitative proteome analysis reveals substantial differences between phagosomes of RAW 264.7 and bone marrow derived macrophages.&quot; <i>Proteomics</i> <b>15</b>(18):3169&ndash;74; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25504905 25504905]; doi: [https://dx.doi.org/10.1002/pmic.201400431 10.1002/pmic.201400431]; GPMDB: [http://gpmdb.org/data/keyword/25504905 6].
-
#Gomes-Alves P, Serra M, Brito C, R-Borlado L, López JA, Vázquez J, Carrondo MJ, Bernad A, Alves PM,  (2015) &quot;Exploring analytical proteomics platforms toward the definition of human cardiac stem cells receptome.&quot; <i>Proteomics</i> <b>15</b>(7):1332&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25504917 25504917]; doi: [https://dx.doi.org/10.1002/pmic.201400318 10.1002/pmic.201400318]; GPMDB: [http://gpmdb.org/data/keyword/25504917 2].
+
#Gomes-Alves P, Serra M, Brito C, R-Borlado L, López JA, Vázquez J, Carrondo MJ, Bernad A, Alves PM,  (2015) &quot;Exploring analytical proteomics platforms toward the definition of human cardiac stem cells receptome.&quot; <i>Proteomics</i> <b>15</b>(7):1332&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25504917 25504917]; doi: [https://dx.doi.org/10.1002/pmic.201400318 10.1002/pmic.201400318]; GPMDB: [http://gpmdb.org/data/keyword/25504917 2].
-
#Baert Y, Stukenborg JB, Landreh M, De Kock J, Jörnvall H, Söder O, Goossens E,  (2015) &quot;Derivation and characterization of a cytocompatible scaffold from human testis.&quot; <i>Hum Reprod</i> <b>30</b>(2):256&ndash;67; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25505010 25505010]; doi: [https://dx.doi.org/10.1093/humrep/deu330 10.1093/humrep/deu330]; GPMDB: [http://gpmdb.org/data/keyword/25505010 1].
+
#Baert Y, Stukenborg JB, Landreh M, De Kock J, Jörnvall H, Söder O, Goossens E,  (2015) &quot;Derivation and characterization of a cytocompatible scaffold from human testis.&quot; <i>Hum Reprod</i> <b>30</b>(2):256&ndash;67; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25505010 25505010]; doi: [https://dx.doi.org/10.1093/humrep/deu330 10.1093/humrep/deu330]; GPMDB: [http://gpmdb.org/data/keyword/25505010 1].
-
#Peláez-García A, Barderas R, Batlle R, Viñas-Castells R, Bartolomé RA, Torres S, Mendes M, Lopez-Lucendo M, Mazzolini R, Bonilla F, García de Herreros A, Casal JI,  (2015) &quot;A proteomic analysis reveals that Snail regulates the expression of the nuclear orphan receptor Nuclear Receptor Subfamily 2 Group F Member 6 (Nr2f6) and interleukin 17 (IL-17) to inhibit adipocyte differentiation.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(2):303&ndash;15; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25505127 25505127]; doi: [https://dx.doi.org/10.1074/mcp.M114.045328 10.1074/mcp.M114.045328]; GPMDB: [http://gpmdb.org/data/keyword/25505127 2].
+
#Peláez-García A, Barderas R, Batlle R, Viñas-Castells R, Bartolomé RA, Torres S, Mendes M, Lopez-Lucendo M, Mazzolini R, Bonilla F, García de Herreros A, Casal JI,  (2015) &quot;A proteomic analysis reveals that Snail regulates the expression of the nuclear orphan receptor Nuclear Receptor Subfamily 2 Group F Member 6 (Nr2f6) and interleukin 17 (IL-17) to inhibit adipocyte differentiation.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(2):303&ndash;15; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25505127 25505127]; doi: [https://dx.doi.org/10.1074/mcp.M114.045328 10.1074/mcp.M114.045328]; GPMDB: [http://gpmdb.org/data/keyword/25505127 2].
#Gao L, Ge H, Huang X, Liu K, Zhang Y, Xu W, Wang Y,  (2015) &quot;Systematically ranking the tightness of membrane association for peripheral membrane proteins (PMPs).&quot; <i>Mol Cell Proteomics</i> <b>14</b>(2):340&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25505158 25505158]; doi: [https://dx.doi.org/10.1074/mcp.M114.044800 10.1074/mcp.M114.044800]; GPMDB: [http://gpmdb.org/data/keyword/25505158 24].
#Gao L, Ge H, Huang X, Liu K, Zhang Y, Xu W, Wang Y,  (2015) &quot;Systematically ranking the tightness of membrane association for peripheral membrane proteins (PMPs).&quot; <i>Mol Cell Proteomics</i> <b>14</b>(2):340&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25505158 25505158]; doi: [https://dx.doi.org/10.1074/mcp.M114.044800 10.1074/mcp.M114.044800]; GPMDB: [http://gpmdb.org/data/keyword/25505158 24].
-
#Low TY, Peng M, Magliozzi R, Mohammed S, Guardavaccaro D, Heck AJ,  (2014) &quot;A systems-wide screen identifies substrates of the SCFβTrCP ubiquitin ligase.&quot; <i>Sci Signal</i> <b>7</b>(356):rs8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25515538 25515538]; doi: [https://dx.doi.org/10.1126/scisignal.2005882 10.1126/scisignal.2005882]; GPMDB: [http://gpmdb.org/data/keyword/25515538 120].
+
#Low TY, Peng M, Magliozzi R, Mohammed S, Guardavaccaro D, Heck AJ,  (2014) &quot;A systems-wide screen identifies substrates of the SCFβTrCP ubiquitin ligase.&quot; <i>Sci Signal</i> <b>7</b>(356):rs8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25515538 25515538]; doi: [https://dx.doi.org/10.1126/scisignal.2005882 10.1126/scisignal.2005882]; GPMDB: [http://gpmdb.org/data/keyword/25515538 120].
#Park JJ, Wang H, Gargouri M, Deshpande RR, Skepper JN, Holguin FO, Juergens MT, Shachar-Hill Y, Hicks LM, Gang DR,  (2015) &quot;The response of Chlamydomonas reinhardtii to nitrogen deprivation: a systems biology analysis.&quot; <i>Plant J</i> <b>81</b>(4):611&ndash;24; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25515814 25515814]; doi: [https://dx.doi.org/10.1111/tpj.12747 10.1111/tpj.12747]; GPMDB: [http://gpmdb.org/data/keyword/25515814 6].
#Park JJ, Wang H, Gargouri M, Deshpande RR, Skepper JN, Holguin FO, Juergens MT, Shachar-Hill Y, Hicks LM, Gang DR,  (2015) &quot;The response of Chlamydomonas reinhardtii to nitrogen deprivation: a systems biology analysis.&quot; <i>Plant J</i> <b>81</b>(4):611&ndash;24; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25515814 25515814]; doi: [https://dx.doi.org/10.1111/tpj.12747 10.1111/tpj.12747]; GPMDB: [http://gpmdb.org/data/keyword/25515814 6].
#Ferl RJ, Koh J, Denison F, Paul AL,  (2015) &quot;Spaceflight induces specific alterations in the proteomes of Arabidopsis.&quot; <i>Astrobiology</i> <b>15</b>(1):32&ndash;56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25517942 25517942]; doi: [https://dx.doi.org/10.1089/ast.2014.1210 10.1089/ast.2014.1210]; GPMDB: [http://gpmdb.org/data/keyword/25517942 15].
#Ferl RJ, Koh J, Denison F, Paul AL,  (2015) &quot;Spaceflight induces specific alterations in the proteomes of Arabidopsis.&quot; <i>Astrobiology</i> <b>15</b>(1):32&ndash;56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25517942 25517942]; doi: [https://dx.doi.org/10.1089/ast.2014.1210 10.1089/ast.2014.1210]; GPMDB: [http://gpmdb.org/data/keyword/25517942 15].
#Mathias RA, Greco TM, Oberstein A, Budayeva HG, Chakrabarti R, Rowland EA, Kang Y, Shenk T, Cristea IM,  (2014) &quot;Sirtuin 4 is a lipoamidase regulating pyruvate dehydrogenase complex activity.&quot; <i>Cell</i> <b>159</b>(7):1615&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25525879 25525879]; doi: [https://dx.doi.org/10.1016/j.cell.2014.11.046 10.1016/j.cell.2014.11.046]; GPMDB: [http://gpmdb.org/data/keyword/25525879 24].
#Mathias RA, Greco TM, Oberstein A, Budayeva HG, Chakrabarti R, Rowland EA, Kang Y, Shenk T, Cristea IM,  (2014) &quot;Sirtuin 4 is a lipoamidase regulating pyruvate dehydrogenase complex activity.&quot; <i>Cell</i> <b>159</b>(7):1615&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25525879 25525879]; doi: [https://dx.doi.org/10.1016/j.cell.2014.11.046 10.1016/j.cell.2014.11.046]; GPMDB: [http://gpmdb.org/data/keyword/25525879 24].
-
#Gueugneau M, Coudy-Gandilhon C, Gourbeyre O, Chambon C, Combaret L, Polge C, Taillandier D, Attaix D, Friguet B, Maier AB, Butler-Browne G, Béchet D,  (2014) &quot;Proteomics of muscle chronological ageing in post-menopausal women.&quot; <i>BMC Genomics</i> <b>15</b>:1165; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25532418 25532418]; doi: [https://dx.doi.org/10.1186/1471-2164-15-1165 10.1186/1471-2164-15-1165]; GPMDB: [http://gpmdb.org/data/keyword/25532418 98].
+
#Gueugneau M, Coudy-Gandilhon C, Gourbeyre O, Chambon C, Combaret L, Polge C, Taillandier D, Attaix D, Friguet B, Maier AB, Butler-Browne G, Béchet D,  (2014) &quot;Proteomics of muscle chronological ageing in post-menopausal women.&quot; <i>BMC Genomics</i> <b>15</b>:1165; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25532418 25532418]; doi: [https://dx.doi.org/10.1186/1471-2164-15-1165 10.1186/1471-2164-15-1165]; GPMDB: [http://gpmdb.org/data/keyword/25532418 98].
-
#Hustedt N, Seeber A, Sack R, Tsai-Pflugfelder M, Bhullar B, Vlaming H, van Leeuwen F, Guénolé A, van Attikum H, Srivas R, Ideker T, Shimada K, Gasser SM,  (2015) &quot;Yeast PP4 interacts with ATR homolog Ddc2-Mec1 and regulates checkpoint signaling.&quot; <i>Mol Cell</i> <b>57</b>(2):273&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25533186 25533186]; doi: [https://dx.doi.org/10.1016/j.molcel.2014.11.016 10.1016/j.molcel.2014.11.016]; GPMDB: [http://gpmdb.org/data/keyword/25533186 12].
+
#Hustedt N, Seeber A, Sack R, Tsai-Pflugfelder M, Bhullar B, Vlaming H, van Leeuwen F, Guénolé A, van Attikum H, Srivas R, Ideker T, Shimada K, Gasser SM,  (2015) &quot;Yeast PP4 interacts with ATR homolog Ddc2-Mec1 and regulates checkpoint signaling.&quot; <i>Mol Cell</i> <b>57</b>(2):273&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25533186 25533186]; doi: [https://dx.doi.org/10.1016/j.molcel.2014.11.016 10.1016/j.molcel.2014.11.016]; GPMDB: [http://gpmdb.org/data/keyword/25533186 12].
-
#Paster W, Bruger AM, Katsch K, Grégoire C, Roncagalli R, Fu G, Gascoigne NR, Nika K, Cohnen A, Feller SM, Simister PC, Molder KC, Cordoba SP, Dushek O, Malissen B, Acuto O,  (2015) &quot;A THEMIS:SHP1 complex promotes T-cell survival.&quot; <i>EMBO J</i> <b>34</b>(3):393&ndash;409; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25535246 25535246]; doi: [https://dx.doi.org/10.15252/embj.201387725 10.15252/embj.201387725]; GPMDB: [http://gpmdb.org/data/keyword/25535246 15].
+
#Paster W, Bruger AM, Katsch K, Grégoire C, Roncagalli R, Fu G, Gascoigne NR, Nika K, Cohnen A, Feller SM, Simister PC, Molder KC, Cordoba SP, Dushek O, Malissen B, Acuto O,  (2015) &quot;A THEMIS:SHP1 complex promotes T-cell survival.&quot; <i>EMBO J</i> <b>34</b>(3):393&ndash;409; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25535246 25535246]; doi: [https://dx.doi.org/10.15252/embj.201387725 10.15252/embj.201387725]; GPMDB: [http://gpmdb.org/data/keyword/25535246 15].
#Hubner NC, Nguyen LN, Hornig NC, Stunnenberg HG,  (2015) &quot;A quantitative proteomics tool to identify DNA-protein interactions in primary cells or blood.&quot; <i>J Proteome Res</i> <b>14</b>(2):1315&ndash;29; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25546135 25546135]; doi: [https://dx.doi.org/10.1021/pr5009515 10.1021/pr5009515]; GPMDB: [http://gpmdb.org/data/keyword/25546135 82].
#Hubner NC, Nguyen LN, Hornig NC, Stunnenberg HG,  (2015) &quot;A quantitative proteomics tool to identify DNA-protein interactions in primary cells or blood.&quot; <i>J Proteome Res</i> <b>14</b>(2):1315&ndash;29; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25546135 25546135]; doi: [https://dx.doi.org/10.1021/pr5009515 10.1021/pr5009515]; GPMDB: [http://gpmdb.org/data/keyword/25546135 82].
#Chang HY, Li MH, Huang TC, Hsu CL, Tsai SR, Lee SC, Huang HC, Juan HF,  (2015) &quot;Quantitative proteomics reveals middle infrared radiation-interfered networks in breast cancer cells.&quot; <i>J Proteome Res</i> <b>14</b>(2):1250&ndash;62; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25556991 25556991]; doi: [https://dx.doi.org/10.1021/pr5011873 10.1021/pr5011873]; GPMDB: [http://gpmdb.org/data/keyword/25556991 1].
#Chang HY, Li MH, Huang TC, Hsu CL, Tsai SR, Lee SC, Huang HC, Juan HF,  (2015) &quot;Quantitative proteomics reveals middle infrared radiation-interfered networks in breast cancer cells.&quot; <i>J Proteome Res</i> <b>14</b>(2):1250&ndash;62; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25556991 25556991]; doi: [https://dx.doi.org/10.1021/pr5011873 10.1021/pr5011873]; GPMDB: [http://gpmdb.org/data/keyword/25556991 1].
-
#Boj SF, Hwang CI, Baker LA, Chio II, Engle DD, Corbo V, Jager M, Ponz-Sarvise M, Tiriac H, Spector MS, Gracanin A, Oni T, Yu KH, van Boxtel R, Huch M, Rivera KD, Wilson JP, Feigin ME, Öhlund D, Handly-Santana A, Ardito-Abraham CM, Ludwig M, Elyada E, Alagesan B, Biffi G, Yordanov GN, Delcuze B, Creighton B, Wright K, Park Y, Morsink FH, Molenaar IQ, Borel Rinkes IH, Cuppen E, Hao Y, Jin Y, Nijman IJ, Iacobuzio-Donahue C, Leach SD, Pappin DJ, Hammell M, Klimstra DS, Basturk O, Hruban RH, Offerhaus GJ, Vries RG, Clevers H, Tuveson DA,  (2015) &quot;Organoid models of human and mouse ductal pancreatic cancer.&quot; <i>Cell</i> <b>160</b>(1-2):324&ndash;38; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25557080 25557080]; doi: [https://dx.doi.org/10.1016/j.cell.2014.12.021 10.1016/j.cell.2014.12.021]; GPMDB: [http://gpmdb.org/data/keyword/25557080 4].
+
#Boj SF, Hwang CI, Baker LA, Chio II, Engle DD, Corbo V, Jager M, Ponz-Sarvise M, Tiriac H, Spector MS, Gracanin A, Oni T, Yu KH, van Boxtel R, Huch M, Rivera KD, Wilson JP, Feigin ME, Öhlund D, Handly-Santana A, Ardito-Abraham CM, Ludwig M, Elyada E, Alagesan B, Biffi G, Yordanov GN, Delcuze B, Creighton B, Wright K, Park Y, Morsink FH, Molenaar IQ, Borel Rinkes IH, Cuppen E, Hao Y, Jin Y, Nijman IJ, Iacobuzio-Donahue C, Leach SD, Pappin DJ, Hammell M, Klimstra DS, Basturk O, Hruban RH, Offerhaus GJ, Vries RG, Clevers H, Tuveson DA,  (2015) &quot;Organoid models of human and mouse ductal pancreatic cancer.&quot; <i>Cell</i> <b>160</b>(1-2):324&ndash;38; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25557080 25557080]; doi: [https://dx.doi.org/10.1016/j.cell.2014.12.021 10.1016/j.cell.2014.12.021]; GPMDB: [http://gpmdb.org/data/keyword/25557080 4].
#Selevsek N, Chang CY, Gillet LC, Navarro P, Bernhardt OM, Reiter L, Cheng LY, Vitek O, Aebersold R,  (2015) &quot;Reproducible and consistent quantification of the Saccharomyces cerevisiae proteome by SWATH-mass spectrometry.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(3):739&ndash;49; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25561506 25561506]; doi: [https://dx.doi.org/10.1074/mcp.M113.035550 10.1074/mcp.M113.035550]; GPMDB: [http://gpmdb.org/data/keyword/25561506 46].
#Selevsek N, Chang CY, Gillet LC, Navarro P, Bernhardt OM, Reiter L, Cheng LY, Vitek O, Aebersold R,  (2015) &quot;Reproducible and consistent quantification of the Saccharomyces cerevisiae proteome by SWATH-mass spectrometry.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(3):739&ndash;49; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25561506 25561506]; doi: [https://dx.doi.org/10.1074/mcp.M113.035550 10.1074/mcp.M113.035550]; GPMDB: [http://gpmdb.org/data/keyword/25561506 46].
#Kershaw CJ, Costello JL, Castelli LM, Talavera D, Rowe W, Sims PF, Ashe MP, Hubbard SJ, Pavitt GD, Grant CM,  (2015) &quot;The yeast La related protein Slf1p is a key activator of translation during the oxidative stress response.&quot; <i>PLoS Genet</i> <b>11</b>(1):e1004903; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25569619 25569619]; doi: [https://dx.doi.org/10.1371/journal.pgen.1004903 10.1371/journal.pgen.1004903]; GPMDB: [http://gpmdb.org/data/keyword/25569619 20].
#Kershaw CJ, Costello JL, Castelli LM, Talavera D, Rowe W, Sims PF, Ashe MP, Hubbard SJ, Pavitt GD, Grant CM,  (2015) &quot;The yeast La related protein Slf1p is a key activator of translation during the oxidative stress response.&quot; <i>PLoS Genet</i> <b>11</b>(1):e1004903; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25569619 25569619]; doi: [https://dx.doi.org/10.1371/journal.pgen.1004903 10.1371/journal.pgen.1004903]; GPMDB: [http://gpmdb.org/data/keyword/25569619 20].
#Bassani-Sternberg M, Pletscher-Frankild S, Jensen LJ, Mann M,  (2015) &quot;Mass spectrometry of human leukocyte antigen class I peptidomes reveals strong effects of protein abundance and turnover on antigen presentation.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(3):658&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25576301 25576301]; doi: [https://dx.doi.org/10.1074/mcp.M114.042812 10.1074/mcp.M114.042812]; GPMDB: [http://gpmdb.org/data/keyword/25576301 40].
#Bassani-Sternberg M, Pletscher-Frankild S, Jensen LJ, Mann M,  (2015) &quot;Mass spectrometry of human leukocyte antigen class I peptidomes reveals strong effects of protein abundance and turnover on antigen presentation.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(3):658&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25576301 25576301]; doi: [https://dx.doi.org/10.1074/mcp.M114.042812 10.1074/mcp.M114.042812]; GPMDB: [http://gpmdb.org/data/keyword/25576301 40].
#Chiang DY, Lebesgue N, Beavers DL, Alsina KM, Damen JM, Voigt N, Dobrev D, Wehrens XH, Scholten A,  (2015) &quot;Alterations in the interactome of serine/threonine protein phosphatase type-1 in atrial fibrillation patients.&quot; <i>J Am Coll Cardiol</i> <b>65</b>(2):163&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25593058 25593058]; doi: [https://dx.doi.org/10.1016/j.jacc.2014.10.042 10.1016/j.jacc.2014.10.042]; GPMDB: [http://gpmdb.org/data/keyword/25593058 22].
#Chiang DY, Lebesgue N, Beavers DL, Alsina KM, Damen JM, Voigt N, Dobrev D, Wehrens XH, Scholten A,  (2015) &quot;Alterations in the interactome of serine/threonine protein phosphatase type-1 in atrial fibrillation patients.&quot; <i>J Am Coll Cardiol</i> <b>65</b>(2):163&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25593058 25593058]; doi: [https://dx.doi.org/10.1016/j.jacc.2014.10.042 10.1016/j.jacc.2014.10.042]; GPMDB: [http://gpmdb.org/data/keyword/25593058 22].
-
#Kasvandik S, Sillaste G, Velthut-Meikas A, Mikelsaar AV, Hallap T, Padrik P, Tenson T, Jaakma Ü, Kõks S, Salumets A,  (2015) &quot;Bovine sperm plasma membrane proteomics through biotinylation and subcellular enrichment.&quot; <i>Proteomics</i> <b>15</b>(11):1906&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25603787 25603787]; doi: [https://dx.doi.org/10.1002/pmic.201400297 10.1002/pmic.201400297]; GPMDB: [http://gpmdb.org/data/keyword/25603787 16].
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#Kasvandik S, Sillaste G, Velthut-Meikas A, Mikelsaar AV, Hallap T, Padrik P, Tenson T, Jaakma Ãœ, Kõks S, Salumets A,  (2015) &quot;Bovine sperm plasma membrane proteomics through biotinylation and subcellular enrichment.&quot; <i>Proteomics</i> <b>15</b>(11):1906&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25603787 25603787]; doi: [https://dx.doi.org/10.1002/pmic.201400297 10.1002/pmic.201400297]; GPMDB: [http://gpmdb.org/data/keyword/25603787 16].
#Byron A, Askari JA, Humphries JD, Jacquemet G, Koper EJ, Warwood S, Choi CK, Stroud MJ, Chen CS, Knight D, Humphries MJ,  (2015) &quot;A proteomic approach reveals integrin activation state-dependent control of microtubule cortical targeting.&quot; <i>Nat Commun</i> <b>6</b>:6135; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25609142 25609142]; doi: [https://dx.doi.org/10.1038/ncomms7135 10.1038/ncomms7135]; GPMDB: [http://gpmdb.org/data/keyword/25609142 237].
#Byron A, Askari JA, Humphries JD, Jacquemet G, Koper EJ, Warwood S, Choi CK, Stroud MJ, Chen CS, Knight D, Humphries MJ,  (2015) &quot;A proteomic approach reveals integrin activation state-dependent control of microtubule cortical targeting.&quot; <i>Nat Commun</i> <b>6</b>:6135; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25609142 25609142]; doi: [https://dx.doi.org/10.1038/ncomms7135 10.1038/ncomms7135]; GPMDB: [http://gpmdb.org/data/keyword/25609142 237].
#Deshmukh AS, Murgia M, Nagaraj N, Treebak JT, Cox J, Mann M,  (2015) &quot;Deep proteomics of mouse skeletal muscle enables quantitation of protein isoforms, metabolic pathways, and transcription factors.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(4):841&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25616865 25616865]; doi: [https://dx.doi.org/10.1074/mcp.M114.044222 10.1074/mcp.M114.044222]; GPMDB: [http://gpmdb.org/data/keyword/25616865 6].
#Deshmukh AS, Murgia M, Nagaraj N, Treebak JT, Cox J, Mann M,  (2015) &quot;Deep proteomics of mouse skeletal muscle enables quantitation of protein isoforms, metabolic pathways, and transcription factors.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(4):841&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25616865 25616865]; doi: [https://dx.doi.org/10.1074/mcp.M114.044222 10.1074/mcp.M114.044222]; GPMDB: [http://gpmdb.org/data/keyword/25616865 6].
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#Loroch S, Schommartz T, Brune W, Zahedi RP, Sickmann A,  (2015) &quot;Multidimensional electrostatic repulsion-hydrophilic interaction chromatography (ERLIC) for quantitative analysis of the proteome and phosphoproteome in clinical and biomedical research.&quot; <i>Biochim Biophys Acta</i> <b>1854</b>(5):460&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25619855 25619855]; doi: [https://dx.doi.org/10.1016/j.bbapap.2015.01.006 10.1016/j.bbapap.2015.01.006]; GPMDB: [http://gpmdb.org/data/keyword/25619855 36].
#Loroch S, Schommartz T, Brune W, Zahedi RP, Sickmann A,  (2015) &quot;Multidimensional electrostatic repulsion-hydrophilic interaction chromatography (ERLIC) for quantitative analysis of the proteome and phosphoproteome in clinical and biomedical research.&quot; <i>Biochim Biophys Acta</i> <b>1854</b>(5):460&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25619855 25619855]; doi: [https://dx.doi.org/10.1016/j.bbapap.2015.01.006 10.1016/j.bbapap.2015.01.006]; GPMDB: [http://gpmdb.org/data/keyword/25619855 36].
#Harel M, Oren-Giladi P, Kaidar-Person O, Shaked Y, Geiger T,  (2015) &quot;Proteomics of microparticles with SILAC Quantification (PROMIS-Quan): a novel proteomic method for plasma biomarker quantification.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(4):1127&ndash;36; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25624350 25624350]; doi: [https://dx.doi.org/10.1074/mcp.M114.043364 10.1074/mcp.M114.043364]; GPMDB: [http://gpmdb.org/data/keyword/25624350 46].
#Harel M, Oren-Giladi P, Kaidar-Person O, Shaked Y, Geiger T,  (2015) &quot;Proteomics of microparticles with SILAC Quantification (PROMIS-Quan): a novel proteomic method for plasma biomarker quantification.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(4):1127&ndash;36; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25624350 25624350]; doi: [https://dx.doi.org/10.1074/mcp.M114.043364 10.1074/mcp.M114.043364]; GPMDB: [http://gpmdb.org/data/keyword/25624350 46].
-
#Zanker D, Otto W, Chen W, von Bergen M, Tomm JM,  (2015) &quot;Compartment resolved reference proteome map from highly purified naïve, activated, effector, and memory CD8⁺ murine immune cells.&quot; <i>Proteomics</i> <b>15</b>(11):1808&ndash;12; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25643623 25643623]; doi: [https://dx.doi.org/10.1002/pmic.201400405 10.1002/pmic.201400405]; GPMDB: [http://gpmdb.org/data/keyword/25643623 249].
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#Zanker D, Otto W, Chen W, von Bergen M, Tomm JM,  (2015) &quot;Compartment resolved reference proteome map from highly purified naïve, activated, effector, and memory CD8⁺ murine immune cells.&quot; <i>Proteomics</i> <b>15</b>(11):1808&ndash;12; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25643623 25643623]; doi: [https://dx.doi.org/10.1002/pmic.201400405 10.1002/pmic.201400405]; GPMDB: [http://gpmdb.org/data/keyword/25643623 249].
#Murgia M, Nagaraj N, Deshmukh AS, Zeiler M, Cancellara P, Moretti I, Reggiani C, Schiaffino S, Mann M,  (2015) &quot;Single muscle fiber proteomics reveals unexpected mitochondrial specialization.&quot; <i>EMBO Rep</i> <b>16</b>(3):387&ndash;95; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25643707 25643707]; doi: [https://dx.doi.org/10.15252/embr.201439757 10.15252/embr.201439757]; GPMDB: [http://gpmdb.org/data/keyword/25643707 89].
#Murgia M, Nagaraj N, Deshmukh AS, Zeiler M, Cancellara P, Moretti I, Reggiani C, Schiaffino S, Mann M,  (2015) &quot;Single muscle fiber proteomics reveals unexpected mitochondrial specialization.&quot; <i>EMBO Rep</i> <b>16</b>(3):387&ndash;95; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25643707 25643707]; doi: [https://dx.doi.org/10.15252/embr.201439757 10.15252/embr.201439757]; GPMDB: [http://gpmdb.org/data/keyword/25643707 89].
#Marza E, Taouji S, Barroso K, Raymond AA, Guignard L, Bonneu M, Pallares-Lupon N, Dupuy JW, Fernandez-Zapico ME, Rosenbaum J, Palladino F, Dupuy D, Chevet E,  (2015) &quot;Genome-wide screen identifies a novel p97/CDC-48-dependent pathway regulating ER-stress-induced gene transcription.&quot; <i>EMBO Rep</i> <b>16</b>(3):332&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25652260 25652260]; doi: [https://dx.doi.org/10.15252/embr.201439123 10.15252/embr.201439123]; GPMDB: [http://gpmdb.org/data/keyword/25652260 6].
#Marza E, Taouji S, Barroso K, Raymond AA, Guignard L, Bonneu M, Pallares-Lupon N, Dupuy JW, Fernandez-Zapico ME, Rosenbaum J, Palladino F, Dupuy D, Chevet E,  (2015) &quot;Genome-wide screen identifies a novel p97/CDC-48-dependent pathway regulating ER-stress-induced gene transcription.&quot; <i>EMBO Rep</i> <b>16</b>(3):332&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25652260 25652260]; doi: [https://dx.doi.org/10.15252/embr.201439123 10.15252/embr.201439123]; GPMDB: [http://gpmdb.org/data/keyword/25652260 6].
-
#Corradini E, Burgers PP, Plank M, Heck AJ, Scholten A,  (2015) &quot;Huntingtin-associated protein 1 (HAP1) is a cGMP-dependent kinase anchoring protein (GKAP) specific for the cGMP-dependent protein kinase isoform.&quot; <i>J Biol Chem</i> <b>290</b>(12):7887&ndash;96; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25653285 25653285]; doi: [https://dx.doi.org/10.1074/jbc.M114.622613 10.1074/jbc.M114.622613]; GPMDB: [http://gpmdb.org/data/keyword/25653285 6].
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#Corradini E, Burgers PP, Plank M, Heck AJ, Scholten A,  (2015) &quot;Huntingtin-associated protein 1 (HAP1) is a cGMP-dependent kinase anchoring protein (GKAP) specific for the cGMP-dependent protein kinase Iβ isoform.&quot; <i>J Biol Chem</i> <b>290</b>(12):7887&ndash;96; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25653285 25653285]; doi: [https://dx.doi.org/10.1074/jbc.M114.622613 10.1074/jbc.M114.622613]; GPMDB: [http://gpmdb.org/data/keyword/25653285 6].
#Sandin M, Chawade A, Levander F,  (2015) &quot;Is label-free LC-MS/MS ready for biomarker discovery?&quot; <i>Proteomics Clin Appl</i> <b>9</b>(3-4):289&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25656266 25656266]; doi: [https://dx.doi.org/10.1002/prca.201400202 10.1002/prca.201400202]; GPMDB: [http://gpmdb.org/data/keyword/25656266 2].
#Sandin M, Chawade A, Levander F,  (2015) &quot;Is label-free LC-MS/MS ready for biomarker discovery?&quot; <i>Proteomics Clin Appl</i> <b>9</b>(3-4):289&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25656266 25656266]; doi: [https://dx.doi.org/10.1002/prca.201400202 10.1002/prca.201400202]; GPMDB: [http://gpmdb.org/data/keyword/25656266 2].
#Hill RC, Calle EA, Dzieciatkowska M, Niklason LE, Hansen KC,  (2015) &quot;Quantification of extracellular matrix proteins from a rat lung scaffold to provide a molecular readout for tissue engineering.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(4):961&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25660013 25660013]; doi: [https://dx.doi.org/10.1074/mcp.M114.045260 10.1074/mcp.M114.045260]; GPMDB: [http://gpmdb.org/data/keyword/25660013 60].
#Hill RC, Calle EA, Dzieciatkowska M, Niklason LE, Hansen KC,  (2015) &quot;Quantification of extracellular matrix proteins from a rat lung scaffold to provide a molecular readout for tissue engineering.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(4):961&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25660013 25660013]; doi: [https://dx.doi.org/10.1074/mcp.M114.045260 10.1074/mcp.M114.045260]; GPMDB: [http://gpmdb.org/data/keyword/25660013 60].
-
#Médard G, Pachl F, Ruprecht B, Klaeger S, Heinzlmeir S, Helm D, Qiao H, Ku X, Wilhelm M, Kuehne T, Wu Z, Dittmann A, Hopf C, Kramer K, Kuster B,  (2015) &quot;Optimized chemical proteomics assay for kinase inhibitor profiling.&quot; <i>J Proteome Res</i> <b>14</b>(3):1574&ndash;86; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25660469 25660469]; doi: [https://dx.doi.org/10.1021/pr5012608 10.1021/pr5012608]; GPMDB: [http://gpmdb.org/data/keyword/25660469 126].
+
#Médard G, Pachl F, Ruprecht B, Klaeger S, Heinzlmeir S, Helm D, Qiao H, Ku X, Wilhelm M, Kuehne T, Wu Z, Dittmann A, Hopf C, Kramer K, Kuster B,  (2015) &quot;Optimized chemical proteomics assay for kinase inhibitor profiling.&quot; <i>J Proteome Res</i> <b>14</b>(3):1574&ndash;86; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25660469 25660469]; doi: [https://dx.doi.org/10.1021/pr5012608 10.1021/pr5012608]; GPMDB: [http://gpmdb.org/data/keyword/25660469 126].
#Diner BA, Li T, Greco TM, Crow MS, Fuesler JA, Wang J, Cristea IM,  (2015) &quot;The functional interactome of PYHIN immune regulators reveals IFIX is a sensor of viral DNA.&quot; <i>Mol Syst Biol</i> <b>11</b>(1):787; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25665578 25665578]; GPMDB: [http://gpmdb.org/data/keyword/25665578 21].
#Diner BA, Li T, Greco TM, Crow MS, Fuesler JA, Wang J, Cristea IM,  (2015) &quot;The functional interactome of PYHIN immune regulators reveals IFIX is a sensor of viral DNA.&quot; <i>Mol Syst Biol</i> <b>11</b>(1):787; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25665578 25665578]; GPMDB: [http://gpmdb.org/data/keyword/25665578 21].
-
#Jacques S, Ghesquière B, De Bock PJ, Demol H, Wahni K, Willems P, Messens J, Van Breusegem F, Gevaert K,  (2015) &quot;Protein Methionine Sulfoxide Dynamics in Arabidopsis thaliana under Oxidative Stress.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(5):1217&ndash;29; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25693801 25693801]; doi: [https://dx.doi.org/10.1074/mcp.M114.043729 10.1074/mcp.M114.043729]; GPMDB: [http://gpmdb.org/data/keyword/25693801 2].
+
#Jacques S, Ghesquière B, De Bock PJ, Demol H, Wahni K, Willems P, Messens J, Van Breusegem F, Gevaert K,  (2015) &quot;Protein Methionine Sulfoxide Dynamics in Arabidopsis thaliana under Oxidative Stress.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(5):1217&ndash;29; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25693801 25693801]; doi: [https://dx.doi.org/10.1074/mcp.M114.043729 10.1074/mcp.M114.043729]; GPMDB: [http://gpmdb.org/data/keyword/25693801 2].
#Hu J, Huang X, Chen L, Sun X, Lu C, Zhang L, Wang Y, Zuo J,  (2015) &quot;Site-specific nitrosoproteomic identification of endogenously S-nitrosylated proteins in Arabidopsis.&quot; <i>Plant Physiol</i> <b>167</b>(4):1731&ndash;46; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25699590 25699590]; doi: [https://dx.doi.org/10.1104/pp.15.00026 10.1104/pp.15.00026]; GPMDB: [http://gpmdb.org/data/keyword/25699590 12].
#Hu J, Huang X, Chen L, Sun X, Lu C, Zhang L, Wang Y, Zuo J,  (2015) &quot;Site-specific nitrosoproteomic identification of endogenously S-nitrosylated proteins in Arabidopsis.&quot; <i>Plant Physiol</i> <b>167</b>(4):1731&ndash;46; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25699590 25699590]; doi: [https://dx.doi.org/10.1104/pp.15.00026 10.1104/pp.15.00026]; GPMDB: [http://gpmdb.org/data/keyword/25699590 12].
#Peebo K, Valgepea K, Maser A, Nahku R, Adamberg K, Vilu R,  (2015) &quot;Proteome reallocation in Escherichia coli with increasing specific growth rate.&quot; <i>Mol Biosyst</i> <b>11</b>(4):1184&ndash;93; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25712329 25712329]; doi: [https://dx.doi.org/10.1039/c4mb00721b 10.1039/c4mb00721b]; GPMDB: [http://gpmdb.org/data/keyword/25712329 26].
#Peebo K, Valgepea K, Maser A, Nahku R, Adamberg K, Vilu R,  (2015) &quot;Proteome reallocation in Escherichia coli with increasing specific growth rate.&quot; <i>Mol Biosyst</i> <b>11</b>(4):1184&ndash;93; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25712329 25712329]; doi: [https://dx.doi.org/10.1039/c4mb00721b 10.1039/c4mb00721b]; GPMDB: [http://gpmdb.org/data/keyword/25712329 26].
#Kettenbach AN, Deng L, Wu Y, Baldissard S, Adamo ME, Gerber SA, Moseley JB,  (2015) &quot;Quantitative phosphoproteomics reveals pathways for coordination of cell growth and division by the conserved fission yeast kinase pom1.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(5):1275&ndash;87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25720772 25720772]; doi: [https://dx.doi.org/10.1074/mcp.M114.045245 10.1074/mcp.M114.045245]; GPMDB: [http://gpmdb.org/data/keyword/25720772 96].
#Kettenbach AN, Deng L, Wu Y, Baldissard S, Adamo ME, Gerber SA, Moseley JB,  (2015) &quot;Quantitative phosphoproteomics reveals pathways for coordination of cell growth and division by the conserved fission yeast kinase pom1.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(5):1275&ndash;87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25720772 25720772]; doi: [https://dx.doi.org/10.1074/mcp.M114.045245 10.1074/mcp.M114.045245]; GPMDB: [http://gpmdb.org/data/keyword/25720772 96].
-
#González-Prieto R, Cuijpers SA, Luijsterburg MS, van Attikum H, Vertegaal AC,  (2015) &quot;SUMOylation and PARylation cooperate to recruit and stabilize SLX4 at DNA damage sites.&quot; <i>EMBO Rep</i> <b>16</b>(4):512&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25722289 25722289]; doi: [https://dx.doi.org/10.15252/embr.201440017 10.15252/embr.201440017]; GPMDB: [http://gpmdb.org/data/keyword/25722289 27].
+
#González-Prieto R, Cuijpers SA, Luijsterburg MS, van Attikum H, Vertegaal AC,  (2015) &quot;SUMOylation and PARylation cooperate to recruit and stabilize SLX4 at DNA damage sites.&quot; <i>EMBO Rep</i> <b>16</b>(4):512&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25722289 25722289]; doi: [https://dx.doi.org/10.15252/embr.201440017 10.15252/embr.201440017]; GPMDB: [http://gpmdb.org/data/keyword/25722289 27].
#Keshishian H, Burgess MW, Gillette MA, Mertins P, Clauser KR, Mani DR, Kuhn EW, Farrell LA, Gerszten RE, Carr SA,  (2015) &quot;Multiplexed, Quantitative Workflow for Sensitive Biomarker Discovery in Plasma Yields Novel Candidates for Early Myocardial Injury.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(9):2375&ndash;93; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25724909 25724909]; doi: [https://dx.doi.org/10.1074/mcp.M114.046813 10.1074/mcp.M114.046813]; GPMDB: [http://gpmdb.org/data/keyword/25724909 298].
#Keshishian H, Burgess MW, Gillette MA, Mertins P, Clauser KR, Mani DR, Kuhn EW, Farrell LA, Gerszten RE, Carr SA,  (2015) &quot;Multiplexed, Quantitative Workflow for Sensitive Biomarker Discovery in Plasma Yields Novel Candidates for Early Myocardial Injury.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(9):2375&ndash;93; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25724909 25724909]; doi: [https://dx.doi.org/10.1074/mcp.M114.046813 10.1074/mcp.M114.046813]; GPMDB: [http://gpmdb.org/data/keyword/25724909 298].
#Vogel CJ, Smit MA, Maddalo G, Possik PA, Sparidans RW, van der Burg SH, Verdegaal EM, Heck AJ, Samatar AA, Beijnen JH, Altelaar AF, Peeper DS,  (2015) &quot;Cooperative induction of apoptosis in NRAS mutant melanoma by inhibition of MEK and ROCK.&quot; <i>Pigment Cell Melanoma Res</i> <b>28</b>(3):307&ndash;17; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25728708 25728708]; doi: [https://dx.doi.org/10.1111/pcmr.12364 10.1111/pcmr.12364]; GPMDB: [http://gpmdb.org/data/keyword/25728708 170].
#Vogel CJ, Smit MA, Maddalo G, Possik PA, Sparidans RW, van der Burg SH, Verdegaal EM, Heck AJ, Samatar AA, Beijnen JH, Altelaar AF, Peeper DS,  (2015) &quot;Cooperative induction of apoptosis in NRAS mutant melanoma by inhibition of MEK and ROCK.&quot; <i>Pigment Cell Melanoma Res</i> <b>28</b>(3):307&ndash;17; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25728708 25728708]; doi: [https://dx.doi.org/10.1111/pcmr.12364 10.1111/pcmr.12364]; GPMDB: [http://gpmdb.org/data/keyword/25728708 170].
#Zhang H, Deery MJ, Gannon L, Powers SJ, Lilley KS, Theodoulou FL,  (2015) &quot;Quantitative proteomics analysis of the Arg/N-end rule pathway of targeted degradation in Arabidopsis roots.&quot; <i>Proteomics</i> <b>15</b>(14):2447&ndash;57; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25728785 25728785]; doi: [https://dx.doi.org/10.1002/pmic.201400530 10.1002/pmic.201400530]; GPMDB: [http://gpmdb.org/data/keyword/25728785 14].
#Zhang H, Deery MJ, Gannon L, Powers SJ, Lilley KS, Theodoulou FL,  (2015) &quot;Quantitative proteomics analysis of the Arg/N-end rule pathway of targeted degradation in Arabidopsis roots.&quot; <i>Proteomics</i> <b>15</b>(14):2447&ndash;57; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25728785 25728785]; doi: [https://dx.doi.org/10.1002/pmic.201400530 10.1002/pmic.201400530]; GPMDB: [http://gpmdb.org/data/keyword/25728785 14].
#Aller K, Adamberg K, Reile I, Timarova V, Peebo K, Vilu R,  (2015) &quot;Excess of threonine compared with serine promotes threonine aldolase activity in Lactococcus lactis IL1403.&quot; <i>Microbiology</i> <b>161</b>(Pt 5):1073&ndash;80; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25743155 25743155]; doi: [https://dx.doi.org/10.1099/mic.0.000071 10.1099/mic.0.000071]; GPMDB: [http://gpmdb.org/data/keyword/25743155 6].
#Aller K, Adamberg K, Reile I, Timarova V, Peebo K, Vilu R,  (2015) &quot;Excess of threonine compared with serine promotes threonine aldolase activity in Lactococcus lactis IL1403.&quot; <i>Microbiology</i> <b>161</b>(Pt 5):1073&ndash;80; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25743155 25743155]; doi: [https://dx.doi.org/10.1099/mic.0.000071 10.1099/mic.0.000071]; GPMDB: [http://gpmdb.org/data/keyword/25743155 6].
-
#Štalekar M, Yin X, Rebolj K, Darovic S, Troakes C, Mayr M, Shaw CE, Rogelj B,  (2015) &quot;Proteomic analyses reveal that loss of TDP-43 affects RNA processing and intracellular transport.&quot; <i>Neuroscience</i> <b>293</b>:157&ndash;70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25743254 25743254]; doi: [https://dx.doi.org/10.1016/j.neuroscience.2015.02.046 10.1016/j.neuroscience.2015.02.046]; GPMDB: [http://gpmdb.org/data/keyword/25743254 96].
+
#Å talekar M, Yin X, Rebolj K, Darovic S, Troakes C, Mayr M, Shaw CE, Rogelj B,  (2015) &quot;Proteomic analyses reveal that loss of TDP-43 affects RNA processing and intracellular transport.&quot; <i>Neuroscience</i> <b>293</b>:157&ndash;70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25743254 25743254]; doi: [https://dx.doi.org/10.1016/j.neuroscience.2015.02.046 10.1016/j.neuroscience.2015.02.046]; GPMDB: [http://gpmdb.org/data/keyword/25743254 96].
#Jamdhade MD, Pawar H, Chavan S, Sathe G, Umasankar PK, Mahale KN, Dixit T, Madugundu AK, Prasad TS, Gowda H, Pandey A, Patole MS,  (2015) &quot;Comprehensive proteomics analysis of glycosomes from Leishmania donovani.&quot; <i>OMICS</i> <b>19</b>(3):157&ndash;70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25748437 25748437]; doi: [https://dx.doi.org/10.1089/omi.2014.0163 10.1089/omi.2014.0163]; GPMDB: [http://gpmdb.org/data/keyword/25748437 2].
#Jamdhade MD, Pawar H, Chavan S, Sathe G, Umasankar PK, Mahale KN, Dixit T, Madugundu AK, Prasad TS, Gowda H, Pandey A, Patole MS,  (2015) &quot;Comprehensive proteomics analysis of glycosomes from Leishmania donovani.&quot; <i>OMICS</i> <b>19</b>(3):157&ndash;70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25748437 25748437]; doi: [https://dx.doi.org/10.1089/omi.2014.0163 10.1089/omi.2014.0163]; GPMDB: [http://gpmdb.org/data/keyword/25748437 2].
#Willger SD, Liu Z, Olarte RA, Adamo ME, Stajich JE, Myers LC, Kettenbach AN, Hogan DA,  (2015) &quot;Analysis of the Candida albicans Phosphoproteome.&quot; <i>Eukaryot Cell</i> <b>14</b>(5):474&ndash;85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25750214 25750214]; doi: [https://dx.doi.org/10.1128/EC.00011-15 10.1128/EC.00011-15]; GPMDB: [http://gpmdb.org/data/keyword/25750214 13].
#Willger SD, Liu Z, Olarte RA, Adamo ME, Stajich JE, Myers LC, Kettenbach AN, Hogan DA,  (2015) &quot;Analysis of the Candida albicans Phosphoproteome.&quot; <i>Eukaryot Cell</i> <b>14</b>(5):474&ndash;85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25750214 25750214]; doi: [https://dx.doi.org/10.1128/EC.00011-15 10.1128/EC.00011-15]; GPMDB: [http://gpmdb.org/data/keyword/25750214 13].
-
#Schölz C, Weinert BT, Wagner SA, Beli P, Miyake Y, Qi J, Jensen LJ, Streicher W, McCarthy AR, Westwood NJ, Lain S, Cox J, Matthias P, Mann M, Bradner JE, Choudhary C,  (2015) &quot;Acetylation site specificities of lysine deacetylase inhibitors in human cells.&quot; <i>Nat Biotechnol</i> <b>33</b>(4):415&ndash;23; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25751058 25751058]; doi: [https://dx.doi.org/10.1038/nbt.3130 10.1038/nbt.3130]; GPMDB: [http://gpmdb.org/data/keyword/25751058 292].
+
#Schölz C, Weinert BT, Wagner SA, Beli P, Miyake Y, Qi J, Jensen LJ, Streicher W, McCarthy AR, Westwood NJ, Lain S, Cox J, Matthias P, Mann M, Bradner JE, Choudhary C,  (2015) &quot;Acetylation site specificities of lysine deacetylase inhibitors in human cells.&quot; <i>Nat Biotechnol</i> <b>33</b>(4):415&ndash;23; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25751058 25751058]; doi: [https://dx.doi.org/10.1038/nbt.3130 10.1038/nbt.3130]; GPMDB: [http://gpmdb.org/data/keyword/25751058 292].
-
#Alvarez Hayes J, Lamberti Y, Surmann K, Schmidt F, Völker U, Rodriguez ME,  (2015) &quot;Shotgun proteome analysis of Bordetella pertussis reveals a distinct influence of iron availability on the bacterial metabolism, virulence, and defense response.&quot; <i>Proteomics</i> <b>15</b>(13):2258&ndash;66; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25755163 25755163]; doi: [https://dx.doi.org/10.1002/pmic.201400512 10.1002/pmic.201400512]; GPMDB: [http://gpmdb.org/data/keyword/25755163 6].
+
#Alvarez Hayes J, Lamberti Y, Surmann K, Schmidt F, Völker U, Rodriguez ME,  (2015) &quot;Shotgun proteome analysis of Bordetella pertussis reveals a distinct influence of iron availability on the bacterial metabolism, virulence, and defense response.&quot; <i>Proteomics</i> <b>15</b>(13):2258&ndash;66; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25755163 25755163]; doi: [https://dx.doi.org/10.1002/pmic.201400512 10.1002/pmic.201400512]; GPMDB: [http://gpmdb.org/data/keyword/25755163 6].
-
#Xiao Z, Chang JG, Hendriks IA, Sigurðsson JO, Olsen JV, Vertegaal AC,  (2015) &quot;System-wide Analysis of SUMOylation Dynamics in Response to Replication Stress Reveals Novel Small Ubiquitin-like Modified Target Proteins and Acceptor Lysines Relevant for Genome Stability.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(5):1419&ndash;34; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25755297 25755297]; doi: [https://dx.doi.org/10.1074/mcp.O114.044792 10.1074/mcp.O114.044792]; GPMDB: [http://gpmdb.org/data/keyword/25755297 84].
+
#Xiao Z, Chang JG, Hendriks IA, Sigurðsson JO, Olsen JV, Vertegaal AC,  (2015) &quot;System-wide Analysis of SUMOylation Dynamics in Response to Replication Stress Reveals Novel Small Ubiquitin-like Modified Target Proteins and Acceptor Lysines Relevant for Genome Stability.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(5):1419&ndash;34; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25755297 25755297]; doi: [https://dx.doi.org/10.1074/mcp.O114.044792 10.1074/mcp.O114.044792]; GPMDB: [http://gpmdb.org/data/keyword/25755297 84].
-
#Dill BD, Gierlinski M, Härtlova A, Arandilla AG, Guo M, Clarke RG, Trost M,  (2015) &quot;Quantitative proteome analysis of temporally resolved phagosomes following uptake via key phagocytic receptors.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(5):1334&ndash;49; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25755298 25755298]; doi: [https://dx.doi.org/10.1074/mcp.M114.044594 10.1074/mcp.M114.044594]; GPMDB: [http://gpmdb.org/data/keyword/25755298 91].
+
#Dill BD, Gierlinski M, Härtlova A, Arandilla AG, Guo M, Clarke RG, Trost M,  (2015) &quot;Quantitative proteome analysis of temporally resolved phagosomes following uptake via key phagocytic receptors.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(5):1334&ndash;49; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25755298 25755298]; doi: [https://dx.doi.org/10.1074/mcp.M114.044594 10.1074/mcp.M114.044594]; GPMDB: [http://gpmdb.org/data/keyword/25755298 91].
#Mackmull MT, Iskar M, Parca L, Singer S, Bork P, Ori A, Beck M,  (2015) &quot;Histone Deacetylase Inhibitors (HDACi) Cause the Selective Depletion of Bromodomain Containing Proteins (BCPs).&quot; <i>Mol Cell Proteomics</i> <b>14</b>(5):1350&ndash;60; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25755299 25755299]; doi: [https://dx.doi.org/10.1074/mcp.M114.042499 10.1074/mcp.M114.042499]; GPMDB: [http://gpmdb.org/data/keyword/25755299 96].
#Mackmull MT, Iskar M, Parca L, Singer S, Bork P, Ori A, Beck M,  (2015) &quot;Histone Deacetylase Inhibitors (HDACi) Cause the Selective Depletion of Bromodomain Containing Proteins (BCPs).&quot; <i>Mol Cell Proteomics</i> <b>14</b>(5):1350&ndash;60; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25755299 25755299]; doi: [https://dx.doi.org/10.1074/mcp.M114.042499 10.1074/mcp.M114.042499]; GPMDB: [http://gpmdb.org/data/keyword/25755299 96].
#Carter DM, Westdorp K, Noon KR, Terhune SS,  (2015) &quot;Proteomic identification of nuclear processes manipulated by cytomegalovirus early during infection.&quot; <i>Proteomics</i> <b>15</b>(12):1995&ndash;2005; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25758553 25758553]; doi: [https://dx.doi.org/10.1002/pmic.201400599 10.1002/pmic.201400599]; GPMDB: [http://gpmdb.org/data/keyword/25758553 8].
#Carter DM, Westdorp K, Noon KR, Terhune SS,  (2015) &quot;Proteomic identification of nuclear processes manipulated by cytomegalovirus early during infection.&quot; <i>Proteomics</i> <b>15</b>(12):1995&ndash;2005; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25758553 25758553]; doi: [https://dx.doi.org/10.1002/pmic.201400599 10.1002/pmic.201400599]; GPMDB: [http://gpmdb.org/data/keyword/25758553 8].
-
#Martin-Perez M, Villén J,  (2015) &quot;Feasibility of protein turnover studies in prototroph Saccharomyces cerevisiae strains.&quot; <i>Anal Chem</i> <b>87</b>(7):4008&ndash;14; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25767917 25767917]; doi: [https://dx.doi.org/10.1021/acs.analchem.5b00264 10.1021/acs.analchem.5b00264]; GPMDB: [http://gpmdb.org/data/keyword/25767917 22].
+
#Martin-Perez M, Villén J,  (2015) &quot;Feasibility of protein turnover studies in prototroph Saccharomyces cerevisiae strains.&quot; <i>Anal Chem</i> <b>87</b>(7):4008&ndash;14; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25767917 25767917]; doi: [https://dx.doi.org/10.1021/acs.analchem.5b00264 10.1021/acs.analchem.5b00264]; GPMDB: [http://gpmdb.org/data/keyword/25767917 22].
#Zub KA, Sousa MM, Sarno A, Sharma A, Demirovic A, Rao S, Young C, Aas PA, Ericsson I, Sundan A, Jensen ON, Slupphaug G,  (2015) &quot;Modulation of cell metabolic pathways and oxidative stress signaling contribute to acquired melphalan resistance in multiple myeloma cells.&quot; <i>PLoS One</i> <b>10</b>(3):e0119857; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25769101 25769101]; doi: [https://dx.doi.org/10.1371/journal.pone.0119857 10.1371/journal.pone.0119857]; GPMDB: [http://gpmdb.org/data/keyword/25769101 12].
#Zub KA, Sousa MM, Sarno A, Sharma A, Demirovic A, Rao S, Young C, Aas PA, Ericsson I, Sundan A, Jensen ON, Slupphaug G,  (2015) &quot;Modulation of cell metabolic pathways and oxidative stress signaling contribute to acquired melphalan resistance in multiple myeloma cells.&quot; <i>PLoS One</i> <b>10</b>(3):e0119857; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25769101 25769101]; doi: [https://dx.doi.org/10.1371/journal.pone.0119857 10.1371/journal.pone.0119857]; GPMDB: [http://gpmdb.org/data/keyword/25769101 12].
#Shalit T, Elinger D, Savidor A, Gabashvili A, Levin Y,  (2015) &quot;MS1-based label-free proteomics using a quadrupole orbitrap mass spectrometer.&quot; <i>J Proteome Res</i> <b>14</b>(4):1979&ndash;86; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25780947 25780947]; doi: [https://dx.doi.org/10.1021/pr501045t 10.1021/pr501045t]; GPMDB: [http://gpmdb.org/data/keyword/25780947 12].
#Shalit T, Elinger D, Savidor A, Gabashvili A, Levin Y,  (2015) &quot;MS1-based label-free proteomics using a quadrupole orbitrap mass spectrometer.&quot; <i>J Proteome Res</i> <b>14</b>(4):1979&ndash;86; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25780947 25780947]; doi: [https://dx.doi.org/10.1021/pr501045t 10.1021/pr501045t]; GPMDB: [http://gpmdb.org/data/keyword/25780947 12].
#Markmann S, Thelen M, Cornils K, Schweizer M, Brocke-Ahmadinejad N, Willnow T, Heeren J, Gieselmann V, Braulke T, Kollmann K,  (2015) &quot;Lrp1/LDL Receptor Play Critical Roles in Mannose 6-Phosphate-Independent Lysosomal Enzyme Targeting.&quot; <i>Traffic</i> <b>16</b>(7):743&ndash;59; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25786328 25786328]; doi: [https://dx.doi.org/10.1111/tra.12284 10.1111/tra.12284]; GPMDB: [http://gpmdb.org/data/keyword/25786328 3].
#Markmann S, Thelen M, Cornils K, Schweizer M, Brocke-Ahmadinejad N, Willnow T, Heeren J, Gieselmann V, Braulke T, Kollmann K,  (2015) &quot;Lrp1/LDL Receptor Play Critical Roles in Mannose 6-Phosphate-Independent Lysosomal Enzyme Targeting.&quot; <i>Traffic</i> <b>16</b>(7):743&ndash;59; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25786328 25786328]; doi: [https://dx.doi.org/10.1111/tra.12284 10.1111/tra.12284]; GPMDB: [http://gpmdb.org/data/keyword/25786328 3].
-
#Bracht T, Schweinsberg V, Trippler M, Kohl M, Ahrens M, Padden J, Naboulsi W, Barkovits K, Megger DA, Eisenacher M, Borchers CH, Schlaak JF, Hoffmann AC, Weber F, Baba HA, Meyer HE, Sitek B,  (2015) &quot;Analysis of disease-associated protein expression using quantitative proteomics—fibulin-5 is expressed in association with hepatic fibrosis.&quot; <i>J Proteome Res</i> <b>14</b>(5):2278&ndash;86; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25807371 25807371]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00053 10.1021/acs.jproteome.5b00053]; GPMDB: [http://gpmdb.org/data/keyword/25807371 27].
+
#Bracht T, Schweinsberg V, Trippler M, Kohl M, Ahrens M, Padden J, Naboulsi W, Barkovits K, Megger DA, Eisenacher M, Borchers CH, Schlaak JF, Hoffmann AC, Weber F, Baba HA, Meyer HE, Sitek B,  (2015) &quot;Analysis of disease-associated protein expression using quantitative proteomics—fibulin-5 is expressed in association with hepatic fibrosis.&quot; <i>J Proteome Res</i> <b>14</b>(5):2278&ndash;86; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25807371 25807371]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00053 10.1021/acs.jproteome.5b00053]; GPMDB: [http://gpmdb.org/data/keyword/25807371 27].
#Broncel M, Serwa RA, Ciepla P, Krause E, Dallman MJ, Magee AI, Tate EW,  (2015) &quot;Multifunctional reagents for quantitative proteome-wide analysis of protein modification in human cells and dynamic profiling of protein lipidation during vertebrate development.&quot; <i>Angew Chem Int Ed Engl</i> <b>54</b>(20):5948&ndash;51; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25807930 25807930]; doi: [https://dx.doi.org/10.1002/anie.201500342 10.1002/anie.201500342]; GPMDB: [http://gpmdb.org/data/keyword/25807930 1].
#Broncel M, Serwa RA, Ciepla P, Krause E, Dallman MJ, Magee AI, Tate EW,  (2015) &quot;Multifunctional reagents for quantitative proteome-wide analysis of protein modification in human cells and dynamic profiling of protein lipidation during vertebrate development.&quot; <i>Angew Chem Int Ed Engl</i> <b>54</b>(20):5948&ndash;51; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25807930 25807930]; doi: [https://dx.doi.org/10.1002/anie.201500342 10.1002/anie.201500342]; GPMDB: [http://gpmdb.org/data/keyword/25807930 1].
#Tsai CF, Wang YT, Yen HY, Tsou CC, Ku WC, Lin PY, Chen HY, Nesvizhskii AI, Ishihama Y, Chen YJ,  (2015) &quot;Large-scale determination of absolute phosphorylation stoichiometries in human cells by motif-targeting quantitative proteomics.&quot; <i>Nat Commun</i> <b>6</b>:6622; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25814448 25814448]; doi: [https://dx.doi.org/10.1038/ncomms7622 10.1038/ncomms7622]; GPMDB: [http://gpmdb.org/data/keyword/25814448 24].
#Tsai CF, Wang YT, Yen HY, Tsou CC, Ku WC, Lin PY, Chen HY, Nesvizhskii AI, Ishihama Y, Chen YJ,  (2015) &quot;Large-scale determination of absolute phosphorylation stoichiometries in human cells by motif-targeting quantitative proteomics.&quot; <i>Nat Commun</i> <b>6</b>:6622; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25814448 25814448]; doi: [https://dx.doi.org/10.1038/ncomms7622 10.1038/ncomms7622]; GPMDB: [http://gpmdb.org/data/keyword/25814448 24].
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#Alpert AJ, Hudecz O, Mechtler K,  (2015) &quot;Anion-exchange chromatography of phosphopeptides: weak anion exchange versus strong anion exchange and anion-exchange chromatography versus electrostatic repulsion-hydrophilic interaction chromatography.&quot; <i>Anal Chem</i> <b>87</b>(9):4704&ndash;11; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25827581 25827581]; doi: [https://dx.doi.org/10.1021/ac504420c 10.1021/ac504420c]; GPMDB: [http://gpmdb.org/data/keyword/25827581 42].
#Alpert AJ, Hudecz O, Mechtler K,  (2015) &quot;Anion-exchange chromatography of phosphopeptides: weak anion exchange versus strong anion exchange and anion-exchange chromatography versus electrostatic repulsion-hydrophilic interaction chromatography.&quot; <i>Anal Chem</i> <b>87</b>(9):4704&ndash;11; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25827581 25827581]; doi: [https://dx.doi.org/10.1021/ac504420c 10.1021/ac504420c]; GPMDB: [http://gpmdb.org/data/keyword/25827581 42].
#Ao J, Mu Y, Xiang LX, Fan D, Feng M, Zhang S, Shi Q, Zhu LY, Li T, Ding Y, Nie L, Li Q, Dong WR, Jiang L, Sun B, Zhang X, Li M, Zhang HQ, Xie S, Zhu Y, Jiang X, Wang X, Mu P, Chen W, Yue Z, Wang Z, Wang J, Shao JZ, Chen X,  (2015) &quot;Genome sequencing of the perciform fish Larimichthys crocea provides insights into molecular and genetic mechanisms of stress adaptation.&quot; <i>PLoS Genet</i> <b>11</b>(4):e1005118; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25835551 25835551]; doi: [https://dx.doi.org/10.1371/journal.pgen.1005118 10.1371/journal.pgen.1005118]; GPMDB: [http://gpmdb.org/data/keyword/25835551 20].
#Ao J, Mu Y, Xiang LX, Fan D, Feng M, Zhang S, Shi Q, Zhu LY, Li T, Ding Y, Nie L, Li Q, Dong WR, Jiang L, Sun B, Zhang X, Li M, Zhang HQ, Xie S, Zhu Y, Jiang X, Wang X, Mu P, Chen W, Yue Z, Wang Z, Wang J, Shao JZ, Chen X,  (2015) &quot;Genome sequencing of the perciform fish Larimichthys crocea provides insights into molecular and genetic mechanisms of stress adaptation.&quot; <i>PLoS Genet</i> <b>11</b>(4):e1005118; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25835551 25835551]; doi: [https://dx.doi.org/10.1371/journal.pgen.1005118 10.1371/journal.pgen.1005118]; GPMDB: [http://gpmdb.org/data/keyword/25835551 20].
-
#Lardi M, Aguilar C, Pedrioli A, Omasits U, Suppiger A, Cárcamo-Oyarce G, Schmid N, Ahrens CH, Eberl L, Pessi G,  (2015) &quot;σ54-Dependent Response to Nitrogen Limitation and Virulence in Burkholderia cenocepacia Strain H111.&quot; <i>Appl Environ Microbiol</i> <b>81</b>(12):4077&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25841012 25841012]; doi: [https://dx.doi.org/10.1128/AEM.00694-15 10.1128/AEM.00694-15]; GPMDB: [http://gpmdb.org/data/keyword/25841012 40].
+
#Lardi M, Aguilar C, Pedrioli A, Omasits U, Suppiger A, Cárcamo-Oyarce G, Schmid N, Ahrens CH, Eberl L, Pessi G,  (2015) &quot;σ54-Dependent Response to Nitrogen Limitation and Virulence in Burkholderia cenocepacia Strain H111.&quot; <i>Appl Environ Microbiol</i> <b>81</b>(12):4077&ndash;89; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25841012 25841012]; doi: [https://dx.doi.org/10.1128/AEM.00694-15 10.1128/AEM.00694-15]; GPMDB: [http://gpmdb.org/data/keyword/25841012 40].
#Piersma SR, Knol JC, de Reus I, Labots M, Sampadi BK, Pham TV, Ishihama Y, Verheul HM, Jimenez CR,  (2015) &quot;Feasibility of label-free phosphoproteomics and application to base-line signaling of colorectal cancer cell lines.&quot; <i>J Proteomics</i> <b>127</b>(Pt B):247&ndash;58; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25841592 25841592]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.03.019 10.1016/j.jprot.2015.03.019]; GPMDB: [http://gpmdb.org/data/keyword/25841592 31].
#Piersma SR, Knol JC, de Reus I, Labots M, Sampadi BK, Pham TV, Ishihama Y, Verheul HM, Jimenez CR,  (2015) &quot;Feasibility of label-free phosphoproteomics and application to base-line signaling of colorectal cancer cell lines.&quot; <i>J Proteomics</i> <b>127</b>(Pt B):247&ndash;58; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25841592 25841592]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.03.019 10.1016/j.jprot.2015.03.019]; GPMDB: [http://gpmdb.org/data/keyword/25841592 31].
#Krisp C, Yang H, van Soest R, Molloy MP,  (2015) &quot;Online Peptide fractionation using a multiphasic microfluidic liquid chromatography chip improves reproducibility and detection limits for quantitation in discovery and targeted proteomics.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(6):1708&ndash;19; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25850434 25850434]; doi: [https://dx.doi.org/10.1074/mcp.M114.046425 10.1074/mcp.M114.046425]; GPMDB: [http://gpmdb.org/data/keyword/25850434 12].
#Krisp C, Yang H, van Soest R, Molloy MP,  (2015) &quot;Online Peptide fractionation using a multiphasic microfluidic liquid chromatography chip improves reproducibility and detection limits for quantitation in discovery and targeted proteomics.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(6):1708&ndash;19; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25850434 25850434]; doi: [https://dx.doi.org/10.1074/mcp.M114.046425 10.1074/mcp.M114.046425]; GPMDB: [http://gpmdb.org/data/keyword/25850434 12].
#Stuart SA, Houel S, Lee T, Wang N, Old WM, Ahn NG,  (2015) &quot;A Phosphoproteomic Comparison of B-RAFV600E and MKK1/2 Inhibitors in Melanoma Cells.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(6):1599&ndash;615; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25850435 25850435]; doi: [https://dx.doi.org/10.1074/mcp.M114.047233 10.1074/mcp.M114.047233]; GPMDB: [http://gpmdb.org/data/keyword/25850435 255].
#Stuart SA, Houel S, Lee T, Wang N, Old WM, Ahn NG,  (2015) &quot;A Phosphoproteomic Comparison of B-RAFV600E and MKK1/2 Inhibitors in Melanoma Cells.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(6):1599&ndash;615; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25850435 25850435]; doi: [https://dx.doi.org/10.1074/mcp.M114.047233 10.1074/mcp.M114.047233]; GPMDB: [http://gpmdb.org/data/keyword/25850435 255].
#Oberstein A, Perlman DH, Shenk T, Terry LJ,  (2015) &quot;Human cytomegalovirus pUL97 kinase induces global changes in the infected cell phosphoproteome.&quot; <i>Proteomics</i> <b>15</b>(12):2006&ndash;22; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25867546 25867546]; doi: [https://dx.doi.org/10.1002/pmic.201400607 10.1002/pmic.201400607]; GPMDB: [http://gpmdb.org/data/keyword/25867546 8].
#Oberstein A, Perlman DH, Shenk T, Terry LJ,  (2015) &quot;Human cytomegalovirus pUL97 kinase induces global changes in the infected cell phosphoproteome.&quot; <i>Proteomics</i> <b>15</b>(12):2006&ndash;22; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25867546 25867546]; doi: [https://dx.doi.org/10.1002/pmic.201400607 10.1002/pmic.201400607]; GPMDB: [http://gpmdb.org/data/keyword/25867546 8].
-
#Papadopoulos P, Gutiérrez L, Demmers J, Scheer E, Pourfarzad F, Papageorgiou DN, Karkoulia E, Strouboulis J, van de Werken HJ, van der Linden R, Vandenberghe P, Dekkers DH, Philipsen S, Grosveld F, Tora L,  (2015) &quot;TAF10 Interacts with the GATA1 Transcription Factor and Controls Mouse Erythropoiesis.&quot; <i>Mol Cell Biol</i> <b>35</b>(12):2103&ndash;18; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25870109 25870109]; doi: [https://dx.doi.org/10.1128/MCB.01370-14 10.1128/MCB.01370-14]; GPMDB: [http://gpmdb.org/data/keyword/25870109 4].
+
#Papadopoulos P, Gutiérrez L, Demmers J, Scheer E, Pourfarzad F, Papageorgiou DN, Karkoulia E, Strouboulis J, van de Werken HJ, van der Linden R, Vandenberghe P, Dekkers DH, Philipsen S, Grosveld F, Tora L,  (2015) &quot;TAF10 Interacts with the GATA1 Transcription Factor and Controls Mouse Erythropoiesis.&quot; <i>Mol Cell Biol</i> <b>35</b>(12):2103&ndash;18; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25870109 25870109]; doi: [https://dx.doi.org/10.1128/MCB.01370-14 10.1128/MCB.01370-14]; GPMDB: [http://gpmdb.org/data/keyword/25870109 4].
#Tyagi K, Pedrioli PG,  (2015) &quot;Protein degradation and dynamic tRNA thiolation fine-tune translation at elevated temperatures.&quot; <i>Nucleic Acids Res</i> <b>43</b>(9):4701&ndash;12; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25870413 25870413]; doi: [https://dx.doi.org/10.1093/nar/gkv322 10.1093/nar/gkv322]; GPMDB: [http://gpmdb.org/data/keyword/25870413 46].
#Tyagi K, Pedrioli PG,  (2015) &quot;Protein degradation and dynamic tRNA thiolation fine-tune translation at elevated temperatures.&quot; <i>Nucleic Acids Res</i> <b>43</b>(9):4701&ndash;12; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25870413 25870413]; doi: [https://dx.doi.org/10.1093/nar/gkv322 10.1093/nar/gkv322]; GPMDB: [http://gpmdb.org/data/keyword/25870413 46].
-
#Rauniyar N, Subramanian K, Lavallée-Adam M, Martínez-Bartolomé S, Balch WE, Yates JR 3rd,  (2015) &quot;Quantitative Proteomics of Human Fibroblasts with I1061T Mutation in Niemann-Pick C1 (NPC1) Protein Provides Insights into the Disease Pathogenesis.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(7):1734&ndash;49; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25873482 25873482]; doi: [https://dx.doi.org/10.1074/mcp.M114.045609 10.1074/mcp.M114.045609]; GPMDB: [http://gpmdb.org/data/keyword/25873482 2].
+
#Rauniyar N, Subramanian K, Lavallée-Adam M, Martínez-Bartolomé S, Balch WE, Yates JR 3rd,  (2015) &quot;Quantitative Proteomics of Human Fibroblasts with I1061T Mutation in Niemann-Pick C1 (NPC1) Protein Provides Insights into the Disease Pathogenesis.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(7):1734&ndash;49; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25873482 25873482]; doi: [https://dx.doi.org/10.1074/mcp.M114.045609 10.1074/mcp.M114.045609]; GPMDB: [http://gpmdb.org/data/keyword/25873482 2].
-
#Welinder C, Pawłowski K, Sugihara Y, Yakovleva M, Jönsson G, Ingvar C, Lundgren L, Baldetorp B, Olsson H, Rezeli M, Jansson B, Laurell T, Fehniger T, Döme B, Malm J, Wieslander E, Nishimura T, Marko-Varga G,  (2015) &quot;A protein deep sequencing evaluation of metastatic melanoma tissues.&quot; <i>PLoS One</i> <b>10</b>(4):e0123661; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25874936 25874936]; doi: [https://dx.doi.org/10.1371/journal.pone.0123661 10.1371/journal.pone.0123661]; GPMDB: [http://gpmdb.org/data/keyword/25874936 11].
+
#Welinder C, PawÅ‚owski K, Sugihara Y, Yakovleva M, Jönsson G, Ingvar C, Lundgren L, Baldetorp B, Olsson H, Rezeli M, Jansson B, Laurell T, Fehniger T, Döme B, Malm J, Wieslander E, Nishimura T, Marko-Varga G,  (2015) &quot;A protein deep sequencing evaluation of metastatic melanoma tissues.&quot; <i>PLoS One</i> <b>10</b>(4):e0123661; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25874936 25874936]; doi: [https://dx.doi.org/10.1371/journal.pone.0123661 10.1371/journal.pone.0123661]; GPMDB: [http://gpmdb.org/data/keyword/25874936 11].
#Hosp F, Scheltema RA, Eberl HC, Kulak NA, Keilhauer EC, Mayr K, Mann M,  (2015) &quot;A Double-Barrel Liquid Chromatography-Tandem Mass Spectrometry (LC-MS/MS) System to Quantify 96 Interactomes per Day.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(7):2030&ndash;41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25887394 25887394]; doi: [https://dx.doi.org/10.1074/mcp.O115.049460 10.1074/mcp.O115.049460]; GPMDB: [http://gpmdb.org/data/keyword/25887394 234].
#Hosp F, Scheltema RA, Eberl HC, Kulak NA, Keilhauer EC, Mayr K, Mann M,  (2015) &quot;A Double-Barrel Liquid Chromatography-Tandem Mass Spectrometry (LC-MS/MS) System to Quantify 96 Interactomes per Day.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(7):2030&ndash;41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25887394 25887394]; doi: [https://dx.doi.org/10.1074/mcp.O115.049460 10.1074/mcp.O115.049460]; GPMDB: [http://gpmdb.org/data/keyword/25887394 234].
#Xu R, Greening DW, Rai A, Ji H, Simpson RJ,  (2015) &quot;Highly-purified exosomes and shed microvesicles isolated from the human colon cancer cell line LIM1863 by sequential centrifugal ultrafiltration are biochemically and functionally distinct.&quot; <i>Methods</i> <b>87</b>:11&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25890246 25890246]; doi: [https://dx.doi.org/10.1016/j.ymeth.2015.04.008 10.1016/j.ymeth.2015.04.008]; GPMDB: [http://gpmdb.org/data/keyword/25890246 4].
#Xu R, Greening DW, Rai A, Ji H, Simpson RJ,  (2015) &quot;Highly-purified exosomes and shed microvesicles isolated from the human colon cancer cell line LIM1863 by sequential centrifugal ultrafiltration are biochemically and functionally distinct.&quot; <i>Methods</i> <b>87</b>:11&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25890246 25890246]; doi: [https://dx.doi.org/10.1016/j.ymeth.2015.04.008 10.1016/j.ymeth.2015.04.008]; GPMDB: [http://gpmdb.org/data/keyword/25890246 4].
-
#van der Mijn JC, Labots M, Piersma SR, Pham TV, Knol JC, Broxterman HJ, Verheul HM, Jiménez CR,  (2015) &quot;Evaluation of different phospho-tyrosine antibodies for label-free phosphoproteomics.&quot; <i>J Proteomics</i> <b>127</b>(Pt B):259&ndash;63; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25890253 25890253]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.04.006 10.1016/j.jprot.2015.04.006]; GPMDB: [http://gpmdb.org/data/keyword/25890253 10].
+
#van der Mijn JC, Labots M, Piersma SR, Pham TV, Knol JC, Broxterman HJ, Verheul HM, Jiménez CR,  (2015) &quot;Evaluation of different phospho-tyrosine antibodies for label-free phosphoproteomics.&quot; <i>J Proteomics</i> <b>127</b>(Pt B):259&ndash;63; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25890253 25890253]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.04.006 10.1016/j.jprot.2015.04.006]; GPMDB: [http://gpmdb.org/data/keyword/25890253 10].
-
#Lawrence RT, Perez EM, Hernández D, Miller CP, Haas KM, Irie HY, Lee SI, Blau CA, Villén J,  (2015) &quot;The proteomic landscape of triple-negative breast cancer.&quot; <i>Cell Rep</i> <b>11</b>(4):630&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25892236 25892236]; doi: [https://dx.doi.org/10.1016/j.celrep.2015.03.050 10.1016/j.celrep.2015.03.050]; GPMDB: [http://gpmdb.org/data/keyword/25892236 91].
+
#Lawrence RT, Perez EM, Hernández D, Miller CP, Haas KM, Irie HY, Lee SI, Blau CA, Villén J,  (2015) &quot;The proteomic landscape of triple-negative breast cancer.&quot; <i>Cell Rep</i> <b>11</b>(4):630&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25892236 25892236]; doi: [https://dx.doi.org/10.1016/j.celrep.2015.03.050 10.1016/j.celrep.2015.03.050]; GPMDB: [http://gpmdb.org/data/keyword/25892236 91].
#Wang J, Zhang Y, Yu Y,  (2015) &quot;Crescendo: A Protein Sequence Database Search Engine for Tandem Mass Spectra.&quot; <i>J Am Soc Mass Spectrom</i> <b>26</b>(7):1077&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25895889 25895889]; doi: [https://dx.doi.org/10.1007/s13361-015-1120-3 10.1007/s13361-015-1120-3]; GPMDB: [http://gpmdb.org/data/keyword/25895889 20].
#Wang J, Zhang Y, Yu Y,  (2015) &quot;Crescendo: A Protein Sequence Database Search Engine for Tandem Mass Spectra.&quot; <i>J Am Soc Mass Spectrom</i> <b>26</b>(7):1077&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25895889 25895889]; doi: [https://dx.doi.org/10.1007/s13361-015-1120-3 10.1007/s13361-015-1120-3]; GPMDB: [http://gpmdb.org/data/keyword/25895889 20].
-
#Wendler S, Otto A, Ortseifen V, Bonn F, Neshat A, Schneiker-Bekel S, Walter F, Wolf T, Zemke T, Wehmeier UF, Hecker M, Kalinowski J, Becher D, Pühler A,  (2015) &quot;Comprehensive proteome analysis of Actinoplanes sp. SE50/110 highlighting the location of proteins encoded by the acarbose and the pyochelin biosynthesis gene cluster.&quot; <i>J Proteomics</i> <b>125</b>:1&ndash;16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25896738 25896738]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.04.013 10.1016/j.jprot.2015.04.013]; GPMDB: [http://gpmdb.org/data/keyword/25896738 198].
+
#Wendler S, Otto A, Ortseifen V, Bonn F, Neshat A, Schneiker-Bekel S, Walter F, Wolf T, Zemke T, Wehmeier UF, Hecker M, Kalinowski J, Becher D, Pühler A,  (2015) &quot;Comprehensive proteome analysis of Actinoplanes sp. SE50/110 highlighting the location of proteins encoded by the acarbose and the pyochelin biosynthesis gene cluster.&quot; <i>J Proteomics</i> <b>125</b>:1&ndash;16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25896738 25896738]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.04.013 10.1016/j.jprot.2015.04.013]; GPMDB: [http://gpmdb.org/data/keyword/25896738 198].
#Tan HT, Lim TK, Richards AM, Kofidis T, Teoh KL, Ling LH, Chung MC,  (2015) &quot;Unravelling the proteome of degenerative human mitral valves.&quot; <i>Proteomics</i> <b>15</b>(17):2934&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25914152 25914152]; doi: [https://dx.doi.org/10.1002/pmic.201500040 10.1002/pmic.201500040]; GPMDB: [http://gpmdb.org/data/keyword/25914152 12].
#Tan HT, Lim TK, Richards AM, Kofidis T, Teoh KL, Ling LH, Chung MC,  (2015) &quot;Unravelling the proteome of degenerative human mitral valves.&quot; <i>Proteomics</i> <b>15</b>(17):2934&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25914152 25914152]; doi: [https://dx.doi.org/10.1002/pmic.201500040 10.1002/pmic.201500040]; GPMDB: [http://gpmdb.org/data/keyword/25914152 12].
-
#Arntzen , Karlskås IL, Skaugen M, Eijsink VG, Mathiesen G,  (2015) &quot;Proteomic Investigation of the Response of Enterococcus faecalis V583 when Cultivated in Urine.&quot; <i>PLoS One</i> <b>10</b>(4):e0126694; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25915650 25915650]; doi: [https://dx.doi.org/10.1371/journal.pone.0126694 10.1371/journal.pone.0126694]; GPMDB: [http://gpmdb.org/data/keyword/25915650 24].
+
#Arntzen MØ, KarlskÃ¥s IL, Skaugen M, Eijsink VG, Mathiesen G,  (2015) &quot;Proteomic Investigation of the Response of Enterococcus faecalis V583 when Cultivated in Urine.&quot; <i>PLoS One</i> <b>10</b>(4):e0126694; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25915650 25915650]; doi: [https://dx.doi.org/10.1371/journal.pone.0126694 10.1371/journal.pone.0126694]; GPMDB: [http://gpmdb.org/data/keyword/25915650 24].
#Franck WL, Gokce E, Randall SM, Oh Y, Eyre A, Muddiman DC, Dean RA,  (2015) &quot;Phosphoproteome Analysis Links Protein Phosphorylation to Cellular Remodeling and Metabolic Adaptation during Magnaporthe oryzae Appressorium Development.&quot; <i>J Proteome Res</i> <b>14</b>(6):2408&ndash;24; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25926025 25926025]; doi: [https://dx.doi.org/10.1021/pr501064q 10.1021/pr501064q]; GPMDB: [http://gpmdb.org/data/keyword/25926025 36].
#Franck WL, Gokce E, Randall SM, Oh Y, Eyre A, Muddiman DC, Dean RA,  (2015) &quot;Phosphoproteome Analysis Links Protein Phosphorylation to Cellular Remodeling and Metabolic Adaptation during Magnaporthe oryzae Appressorium Development.&quot; <i>J Proteome Res</i> <b>14</b>(6):2408&ndash;24; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25926025 25926025]; doi: [https://dx.doi.org/10.1021/pr501064q 10.1021/pr501064q]; GPMDB: [http://gpmdb.org/data/keyword/25926025 36].
#Le Bihan T, Hindle M, Martin SF, Barrios-Llerena ME, Krahmer J, Kis K, Millar AJ, van Ooijen G,  (2015) &quot;Label-free quantitative analysis of the casein kinase 2-responsive phosphoproteome of the marine minimal model species Ostreococcus tauri.&quot; <i>Proteomics</i> <b>15</b>(23-24):4135&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25930153 25930153]; doi: [https://dx.doi.org/10.1002/pmic.201500086 10.1002/pmic.201500086]; GPMDB: [http://gpmdb.org/data/keyword/25930153 35].
#Le Bihan T, Hindle M, Martin SF, Barrios-Llerena ME, Krahmer J, Kis K, Millar AJ, van Ooijen G,  (2015) &quot;Label-free quantitative analysis of the casein kinase 2-responsive phosphoproteome of the marine minimal model species Ostreococcus tauri.&quot; <i>Proteomics</i> <b>15</b>(23-24):4135&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25930153 25930153]; doi: [https://dx.doi.org/10.1002/pmic.201500086 10.1002/pmic.201500086]; GPMDB: [http://gpmdb.org/data/keyword/25930153 35].
#Gadelha C, Zhang W, Chamberlain JW, Chait BT, Wickstead B, Field MC,  (2015) &quot;Architecture of a Host-Parasite Interface: Complex Targeting Mechanisms Revealed Through Proteomics.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(7):1911&ndash;26; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25931509 25931509]; doi: [https://dx.doi.org/10.1074/mcp.M114.047647 10.1074/mcp.M114.047647]; GPMDB: [http://gpmdb.org/data/keyword/25931509 48].
#Gadelha C, Zhang W, Chamberlain JW, Chait BT, Wickstead B, Field MC,  (2015) &quot;Architecture of a Host-Parasite Interface: Complex Targeting Mechanisms Revealed Through Proteomics.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(7):1911&ndash;26; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25931509 25931509]; doi: [https://dx.doi.org/10.1074/mcp.M114.047647 10.1074/mcp.M114.047647]; GPMDB: [http://gpmdb.org/data/keyword/25931509 48].
-
#Räschle M, Smeenk G, Hansen RK, Temu T, Oka Y, Hein MY, Nagaraj N, Long DT, Walter JC, Hofmann K, Storchova Z, Cox J, Bekker-Jensen S, Mailand N, Mann M,  (2015) &quot;DNA repair. Proteomics reveals dynamic assembly of repair complexes during bypass of DNA cross-links.&quot; <i>Science</i> <b>348</b>(6234):1253671; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25931565 25931565]; doi: [https://dx.doi.org/10.1126/science.1253671 10.1126/science.1253671]; GPMDB: [http://gpmdb.org/data/keyword/25931565 21].
+
#Räschle M, Smeenk G, Hansen RK, Temu T, Oka Y, Hein MY, Nagaraj N, Long DT, Walter JC, Hofmann K, Storchova Z, Cox J, Bekker-Jensen S, Mailand N, Mann M,  (2015) &quot;DNA repair. Proteomics reveals dynamic assembly of repair complexes during bypass of DNA cross-links.&quot; <i>Science</i> <b>348</b>(6234):1253671; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25931565 25931565]; doi: [https://dx.doi.org/10.1126/science.1253671 10.1126/science.1253671]; GPMDB: [http://gpmdb.org/data/keyword/25931565 21].
-
#Penzo M, Rocchi L, Brugiere S, Carnicelli D, Onofrillo C, Couté Y, Brigotti M, Montanaro L,  (2015) &quot;Human ribosomes from cells with reduced dyskerin levels are intrinsically altered in translation.&quot; <i>FASEB J</i> <b>29</b>(8):3472&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25934701 25934701]; doi: [https://dx.doi.org/10.1096/fj.15-270991 10.1096/fj.15-270991]; GPMDB: [http://gpmdb.org/data/keyword/25934701 20].
+
#Penzo M, Rocchi L, Brugiere S, Carnicelli D, Onofrillo C, Couté Y, Brigotti M, Montanaro L,  (2015) &quot;Human ribosomes from cells with reduced dyskerin levels are intrinsically altered in translation.&quot; <i>FASEB J</i> <b>29</b>(8):3472&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25934701 25934701]; doi: [https://dx.doi.org/10.1096/fj.15-270991 10.1096/fj.15-270991]; GPMDB: [http://gpmdb.org/data/keyword/25934701 20].
-
#Sjöström M, Ossola R, Breslin T, Rinner O, Malmström L, Schmidt A, Aebersold R, Malmström J, Niméus E,  (2015) &quot;A Combined Shotgun and Targeted Mass Spectrometry Strategy for Breast Cancer Biomarker Discovery.&quot; <i>J Proteome Res</i> <b>14</b>(7):2807&ndash;18; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25944384 25944384]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00315 10.1021/acs.jproteome.5b00315]; GPMDB: [http://gpmdb.org/data/keyword/25944384 238].
+
#Sjöström M, Ossola R, Breslin T, Rinner O, Malmström L, Schmidt A, Aebersold R, Malmström J, Niméus E,  (2015) &quot;A Combined Shotgun and Targeted Mass Spectrometry Strategy for Breast Cancer Biomarker Discovery.&quot; <i>J Proteome Res</i> <b>14</b>(7):2807&ndash;18; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25944384 25944384]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00315 10.1021/acs.jproteome.5b00315]; GPMDB: [http://gpmdb.org/data/keyword/25944384 238].
#Svinkina T, Gu H, Silva JC, Mertins P, Qiao J, Fereshetian S, Jaffe JD, Kuhn E, Udeshi ND, Carr SA,  (2015) &quot;Deep, Quantitative Coverage of the Lysine Acetylome Using Novel Anti-acetyl-lysine Antibodies and an Optimized Proteomic Workflow.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(9):2429&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25953088 25953088]; doi: [https://dx.doi.org/10.1074/mcp.O114.047555 10.1074/mcp.O114.047555]; GPMDB: [http://gpmdb.org/data/keyword/25953088 30].
#Svinkina T, Gu H, Silva JC, Mertins P, Qiao J, Fereshetian S, Jaffe JD, Kuhn E, Udeshi ND, Carr SA,  (2015) &quot;Deep, Quantitative Coverage of the Lysine Acetylome Using Novel Anti-acetyl-lysine Antibodies and an Optimized Proteomic Workflow.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(9):2429&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25953088 25953088]; doi: [https://dx.doi.org/10.1074/mcp.O114.047555 10.1074/mcp.O114.047555]; GPMDB: [http://gpmdb.org/data/keyword/25953088 30].
#Walther DM, Kasturi P, Zheng M, Pinkert S, Vecchi G, Ciryam P, Morimoto RI, Dobson CM, Vendruscolo M, Mann M, Hartl FU,  (2015) &quot;Widespread Proteome Remodeling and Aggregation in Aging C. elegans.&quot; <i>Cell</i> <b>161</b>(4):919&ndash;32; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25957690 25957690]; doi: [https://dx.doi.org/10.1016/j.cell.2015.03.032 10.1016/j.cell.2015.03.032]; GPMDB: [http://gpmdb.org/data/keyword/25957690 278].
#Walther DM, Kasturi P, Zheng M, Pinkert S, Vecchi G, Ciryam P, Morimoto RI, Dobson CM, Vendruscolo M, Mann M, Hartl FU,  (2015) &quot;Widespread Proteome Remodeling and Aggregation in Aging C. elegans.&quot; <i>Cell</i> <b>161</b>(4):919&ndash;32; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25957690 25957690]; doi: [https://dx.doi.org/10.1016/j.cell.2015.03.032 10.1016/j.cell.2015.03.032]; GPMDB: [http://gpmdb.org/data/keyword/25957690 278].
-
#Hosp F, Vossfeldt H, Heinig M, Vasiljevic D, Arumughan A, Wyler E, Genetic and Environmental Risk for Alzheimer’s Disease GERAD1 Consortium, Landthaler M, Hubner N, Wanker EE, Lannfelt L, Ingelsson M, Lalowski M, Voigt A, Selbach M,  (2015) &quot;Quantitative interaction proteomics of neurodegenerative disease proteins.&quot; <i>Cell Rep</i> <b>11</b>(7):1134&ndash;46; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25959826 25959826]; doi: [https://dx.doi.org/10.1016/j.celrep.2015.04.030 10.1016/j.celrep.2015.04.030]; GPMDB: [http://gpmdb.org/data/keyword/25959826 122].
+
#Hosp F, Vossfeldt H, Heinig M, Vasiljevic D, Arumughan A, Wyler E, Genetic and Environmental Risk for Alzheimer’s Disease GERAD1 Consortium, Landthaler M, Hubner N, Wanker EE, Lannfelt L, Ingelsson M, Lalowski M, Voigt A, Selbach M,  (2015) &quot;Quantitative interaction proteomics of neurodegenerative disease proteins.&quot; <i>Cell Rep</i> <b>11</b>(7):1134&ndash;46; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25959826 25959826]; doi: [https://dx.doi.org/10.1016/j.celrep.2015.04.030 10.1016/j.celrep.2015.04.030]; GPMDB: [http://gpmdb.org/data/keyword/25959826 122].
#Tay AP, Pang CN, Twine NA, Hart-Smith G, Harkness L, Kassem M, Wilkins MR,  (2015) &quot;Proteomic Validation of Transcript Isoforms, Including Those Assembled from RNA-Seq Data.&quot; <i>J Proteome Res</i> <b>14</b>(9):3541&ndash;54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25961807 25961807]; doi: [https://dx.doi.org/10.1021/pr5011394 10.1021/pr5011394]; GPMDB: [http://gpmdb.org/data/keyword/25961807 77].
#Tay AP, Pang CN, Twine NA, Hart-Smith G, Harkness L, Kassem M, Wilkins MR,  (2015) &quot;Proteomic Validation of Transcript Isoforms, Including Those Assembled from RNA-Seq Data.&quot; <i>J Proteome Res</i> <b>14</b>(9):3541&ndash;54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25961807 25961807]; doi: [https://dx.doi.org/10.1021/pr5011394 10.1021/pr5011394]; GPMDB: [http://gpmdb.org/data/keyword/25961807 77].
-
#Koch H, Busto ME, Kramer K, Médard G, Kuster B,  (2015) &quot;Chemical Proteomics Uncovers EPHA2 as a Mechanism of Acquired Resistance to Small Molecule EGFR Kinase Inhibition.&quot; <i>J Proteome Res</i> <b>14</b>(6):2617&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25963923 25963923]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00161 10.1021/acs.jproteome.5b00161]; GPMDB: [http://gpmdb.org/data/keyword/25963923 18].
+
#Koch H, Busto ME, Kramer K, Médard G, Kuster B,  (2015) &quot;Chemical Proteomics Uncovers EPHA2 as a Mechanism of Acquired Resistance to Small Molecule EGFR Kinase Inhibition.&quot; <i>J Proteome Res</i> <b>14</b>(6):2617&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25963923 25963923]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00161 10.1021/acs.jproteome.5b00161]; GPMDB: [http://gpmdb.org/data/keyword/25963923 18].
#Watanabe S, Tan D, Lakshminarasimhan M, Washburn MP, Hong EJ, Walz T, Peterson CL,  (2015) &quot;Structural analyses of the chromatin remodelling enzymes INO80-C and SWR-C.&quot; <i>Nat Commun</i> <b>6</b>:7108; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25964121 25964121]; doi: [https://dx.doi.org/10.1038/ncomms8108 10.1038/ncomms8108]; GPMDB: [http://gpmdb.org/data/keyword/25964121 2].
#Watanabe S, Tan D, Lakshminarasimhan M, Washburn MP, Hong EJ, Walz T, Peterson CL,  (2015) &quot;Structural analyses of the chromatin remodelling enzymes INO80-C and SWR-C.&quot; <i>Nat Commun</i> <b>6</b>:7108; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25964121 25964121]; doi: [https://dx.doi.org/10.1038/ncomms8108 10.1038/ncomms8108]; GPMDB: [http://gpmdb.org/data/keyword/25964121 2].
#Xiong Q, Zhang L, Xin L, Gao Y, Peng Y, Tang P, Ge W,  (2015) &quot;Proteomic study of different culture medium serum volume fractions on RANKL-dependent RAW264.7 cells differentiating into osteoclasts.&quot; <i>Proteome Sci</i> <b>13</b>:16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25969670 25969670]; doi: [https://dx.doi.org/10.1186/s12953-015-0073-6 10.1186/s12953-015-0073-6]; GPMDB: [http://gpmdb.org/data/keyword/25969670 1].
#Xiong Q, Zhang L, Xin L, Gao Y, Peng Y, Tang P, Ge W,  (2015) &quot;Proteomic study of different culture medium serum volume fractions on RANKL-dependent RAW264.7 cells differentiating into osteoclasts.&quot; <i>Proteome Sci</i> <b>13</b>:16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25969670 25969670]; doi: [https://dx.doi.org/10.1186/s12953-015-0073-6 10.1186/s12953-015-0073-6]; GPMDB: [http://gpmdb.org/data/keyword/25969670 1].
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#Lee JG, McKinney KQ, Lee YY, Chung HN, Pavlopoulos AJ, Jung KY, Kim WK, Kuroda MJ, Han DK, Hwang S,  (2015) &quot;A draft map of rhesus monkey tissue proteome for biomedical research.&quot; <i>PLoS One</i> <b>10</b>(5):e0126243; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25974132 25974132]; doi: [https://dx.doi.org/10.1371/journal.pone.0126243 10.1371/journal.pone.0126243]; GPMDB: [http://gpmdb.org/data/keyword/25974132 19].
#Lee JG, McKinney KQ, Lee YY, Chung HN, Pavlopoulos AJ, Jung KY, Kim WK, Kuroda MJ, Han DK, Hwang S,  (2015) &quot;A draft map of rhesus monkey tissue proteome for biomedical research.&quot; <i>PLoS One</i> <b>10</b>(5):e0126243; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25974132 25974132]; doi: [https://dx.doi.org/10.1371/journal.pone.0126243 10.1371/journal.pone.0126243]; GPMDB: [http://gpmdb.org/data/keyword/25974132 19].
#Gorshkov V, Verano-Braga T, Kjeldsen F,  (2015) &quot;SuperQuant: A Data Processing Approach to Increase Quantitative Proteome Coverage.&quot; <i>Anal Chem</i> <b>87</b>(12):6319&ndash;27; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25978296 25978296]; doi: [https://dx.doi.org/10.1021/acs.analchem.5b01166 10.1021/acs.analchem.5b01166]; GPMDB: [http://gpmdb.org/data/keyword/25978296 12].
#Gorshkov V, Verano-Braga T, Kjeldsen F,  (2015) &quot;SuperQuant: A Data Processing Approach to Increase Quantitative Proteome Coverage.&quot; <i>Anal Chem</i> <b>87</b>(12):6319&ndash;27; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25978296 25978296]; doi: [https://dx.doi.org/10.1021/acs.analchem.5b01166 10.1021/acs.analchem.5b01166]; GPMDB: [http://gpmdb.org/data/keyword/25978296 12].
-
#Dinets A, Pernemalm M, Kjellin H, Sviatoha V, Sofiadis A, Juhlin CC, Zedenius J, Larsson C, Lehtiö J, Höög A,  (2015) &quot;Differential protein expression profiles of cyst fluid from papillary thyroid carcinoma and benign thyroid lesions.&quot; <i>PLoS One</i> <b>10</b>(5):e0126472; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25978681 25978681]; doi: [https://dx.doi.org/10.1371/journal.pone.0126472 10.1371/journal.pone.0126472]; GPMDB: [http://gpmdb.org/data/keyword/25978681 2].
+
#Dinets A, Pernemalm M, Kjellin H, Sviatoha V, Sofiadis A, Juhlin CC, Zedenius J, Larsson C, Lehtiö J, Höög A,  (2015) &quot;Differential protein expression profiles of cyst fluid from papillary thyroid carcinoma and benign thyroid lesions.&quot; <i>PLoS One</i> <b>10</b>(5):e0126472; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25978681 25978681]; doi: [https://dx.doi.org/10.1371/journal.pone.0126472 10.1371/journal.pone.0126472]; GPMDB: [http://gpmdb.org/data/keyword/25978681 2].
-
#Campos A, Díaz R, Martínez-Bartolomé S, Sierra J, Gallardo O, Sabidó E, López-Lucendo M, Ignacio Casal J, Pasquarello C, Scherl A, Chiva C, Borras E, Odena A, Elortza F, Azkargorta M, Ibarrola N, Canals F, Albar JP, Oliveira E,  (2015) &quot;Multicenter experiment for quality control of peptide-centric LC-MS/MS analysis - A longitudinal performance assessment with nLC coupled to orbitrap MS analyzers.&quot; <i>J Proteomics</i> <b>127</b>(Pt B):264&ndash;74; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25982386 25982386]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.05.012 10.1016/j.jprot.2015.05.012]; GPMDB: [http://gpmdb.org/data/keyword/25982386 112].
+
#Campos A, Díaz R, Martínez-Bartolomé S, Sierra J, Gallardo O, Sabidó E, López-Lucendo M, Ignacio Casal J, Pasquarello C, Scherl A, Chiva C, Borras E, Odena A, Elortza F, Azkargorta M, Ibarrola N, Canals F, Albar JP, Oliveira E,  (2015) &quot;Multicenter experiment for quality control of peptide-centric LC-MS/MS analysis - A longitudinal performance assessment with nLC coupled to orbitrap MS analyzers.&quot; <i>J Proteomics</i> <b>127</b>(Pt B):264&ndash;74; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25982386 25982386]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.05.012 10.1016/j.jprot.2015.05.012]; GPMDB: [http://gpmdb.org/data/keyword/25982386 112].
#Graessel A, Hauck SM, von Toerne C, Kloppmann E, Goldberg T, Koppensteiner H, Schindler M, Knapp B, Krause L, Dietz K, Schmidt-Weber CB, Suttner K,  (2015) &quot;A Combined Omics Approach to Generate the Surface Atlas of Human Naive CD4+ T Cells during Early T-Cell Receptor Activation.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(8):2085&ndash;102; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25991687 25991687]; doi: [https://dx.doi.org/10.1074/mcp.M114.045690 10.1074/mcp.M114.045690]; GPMDB: [http://gpmdb.org/data/keyword/25991687 48].
#Graessel A, Hauck SM, von Toerne C, Kloppmann E, Goldberg T, Koppensteiner H, Schindler M, Knapp B, Krause L, Dietz K, Schmidt-Weber CB, Suttner K,  (2015) &quot;A Combined Omics Approach to Generate the Surface Atlas of Human Naive CD4+ T Cells during Early T-Cell Receptor Activation.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(8):2085&ndash;102; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25991687 25991687]; doi: [https://dx.doi.org/10.1074/mcp.M114.045690 10.1074/mcp.M114.045690]; GPMDB: [http://gpmdb.org/data/keyword/25991687 48].
-
#Bennike TB, Carlsen TG, Ellingsen T, Bonderup OK, Glerup H, Bøgsted M, Christiansen G, Birkelund S, Stensballe A, Andersen V,  (2015) &quot;Neutrophil Extracellular Traps in Ulcerative Colitis: A Proteome Analysis of Intestinal Biopsies.&quot; <i>Inflamm Bowel Dis</i> <b>21</b>(9):2052&ndash;67; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25993694 25993694]; doi: [https://dx.doi.org/10.1097/MIB.0000000000000460 10.1097/MIB.0000000000000460]; GPMDB: [http://gpmdb.org/data/keyword/25993694 60].
+
#Bennike TB, Carlsen TG, Ellingsen T, Bonderup OK, Glerup H, Bøgsted M, Christiansen G, Birkelund S, Stensballe A, Andersen V,  (2015) &quot;Neutrophil Extracellular Traps in Ulcerative Colitis: A Proteome Analysis of Intestinal Biopsies.&quot; <i>Inflamm Bowel Dis</i> <b>21</b>(9):2052&ndash;67; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25993694 25993694]; doi: [https://dx.doi.org/10.1097/MIB.0000000000000460 10.1097/MIB.0000000000000460]; GPMDB: [http://gpmdb.org/data/keyword/25993694 60].
#Kharlampieva D, Manuvera V, Podgorny O, Grafskaia E, Kovalchuk S, Pobeguts O, Altukhov I, Govorun V, Lazarev V,  (2015) &quot;Recombinant fragilysin isoforms cause E-cadherin cleavage of intact cells and do not cleave isolated E-cadherin.&quot; <i>Microb Pathog</i> <b>83-84</b>:47&ndash;56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25998017 25998017]; doi: [https://dx.doi.org/10.1016/j.micpath.2015.05.003 10.1016/j.micpath.2015.05.003]; GPMDB: [http://gpmdb.org/data/keyword/25998017 23].
#Kharlampieva D, Manuvera V, Podgorny O, Grafskaia E, Kovalchuk S, Pobeguts O, Altukhov I, Govorun V, Lazarev V,  (2015) &quot;Recombinant fragilysin isoforms cause E-cadherin cleavage of intact cells and do not cleave isolated E-cadherin.&quot; <i>Microb Pathog</i> <b>83-84</b>:47&ndash;56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25998017 25998017]; doi: [https://dx.doi.org/10.1016/j.micpath.2015.05.003 10.1016/j.micpath.2015.05.003]; GPMDB: [http://gpmdb.org/data/keyword/25998017 23].
#Aeberhard L, Banhart S, Fischer M, Jehmlich N, Rose L, Koch S, Laue M, Renard BY, Schmidt F, Heuer D,  (2015) &quot;The Proteome of the Isolated Chlamydia trachomatis Containing Vacuole Reveals a Complex Trafficking Platform Enriched for Retromer Components.&quot; <i>PLoS Pathog</i> <b>11</b>(6):e1004883; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26042774 26042774]; doi: [https://dx.doi.org/10.1371/journal.ppat.1004883 10.1371/journal.ppat.1004883]; GPMDB: [http://gpmdb.org/data/keyword/26042774 24].
#Aeberhard L, Banhart S, Fischer M, Jehmlich N, Rose L, Koch S, Laue M, Renard BY, Schmidt F, Heuer D,  (2015) &quot;The Proteome of the Isolated Chlamydia trachomatis Containing Vacuole Reveals a Complex Trafficking Platform Enriched for Retromer Components.&quot; <i>PLoS Pathog</i> <b>11</b>(6):e1004883; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26042774 26042774]; doi: [https://dx.doi.org/10.1371/journal.ppat.1004883 10.1371/journal.ppat.1004883]; GPMDB: [http://gpmdb.org/data/keyword/26042774 24].
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#Higgins R, Gendron JM, Rising L, Mak R, Webb K, Kaiser SE, Zuzow N, Riviere P, Yang B, Fenech E, Tang X, Lindsay SA, Christianson JC, Hampton RY, Wasserman SA, Bennett EJ,  (2015) &quot;The Unfolded Protein Response Triggers Site-Specific Regulatory Ubiquitylation of 40S Ribosomal Proteins.&quot; <i>Mol Cell</i> <b>59</b>(1):35&ndash;49; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26051182 26051182]; doi: [https://dx.doi.org/10.1016/j.molcel.2015.04.026 10.1016/j.molcel.2015.04.026]; GPMDB: [http://gpmdb.org/data/keyword/26051182 54].
#Higgins R, Gendron JM, Rising L, Mak R, Webb K, Kaiser SE, Zuzow N, Riviere P, Yang B, Fenech E, Tang X, Lindsay SA, Christianson JC, Hampton RY, Wasserman SA, Bennett EJ,  (2015) &quot;The Unfolded Protein Response Triggers Site-Specific Regulatory Ubiquitylation of 40S Ribosomal Proteins.&quot; <i>Mol Cell</i> <b>59</b>(1):35&ndash;49; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26051182 26051182]; doi: [https://dx.doi.org/10.1016/j.molcel.2015.04.026 10.1016/j.molcel.2015.04.026]; GPMDB: [http://gpmdb.org/data/keyword/26051182 54].
#McCloy RA, Parker BL, Rogers S, Chaudhuri R, Gayevskiy V, Hoffman NJ, Ali N, Watkins DN, Daly RJ, James DE, Lorca T, Castro A, Burgess A,  (2015) &quot;Global Phosphoproteomic Mapping of Early Mitotic Exit in Human Cells Identifies Novel Substrate Dephosphorylation Motifs.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(8):2194&ndash;212; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26055452 26055452]; doi: [https://dx.doi.org/10.1074/mcp.M114.046938 10.1074/mcp.M114.046938]; GPMDB: [http://gpmdb.org/data/keyword/26055452 29].
#McCloy RA, Parker BL, Rogers S, Chaudhuri R, Gayevskiy V, Hoffman NJ, Ali N, Watkins DN, Daly RJ, James DE, Lorca T, Castro A, Burgess A,  (2015) &quot;Global Phosphoproteomic Mapping of Early Mitotic Exit in Human Cells Identifies Novel Substrate Dephosphorylation Motifs.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(8):2194&ndash;212; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26055452 26055452]; doi: [https://dx.doi.org/10.1074/mcp.M114.046938 10.1074/mcp.M114.046938]; GPMDB: [http://gpmdb.org/data/keyword/26055452 29].
-
#Mulvey CM, Schröter C, Gatto L, Dikicioglu D, Fidaner IB, Christoforou A, Deery MJ, Cho LT, Niakan KK, Martinez-Arias A, Lilley KS,  (2015) &quot;Dynamic Proteomic Profiling of Extra-Embryonic Endoderm Differentiation in Mouse Embryonic Stem Cells.&quot; <i>Stem Cells</i> <b>33</b>(9):2712&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26059426 26059426]; doi: [https://dx.doi.org/10.1002/stem.2067 10.1002/stem.2067]; GPMDB: [http://gpmdb.org/data/keyword/26059426 7].
+
#Mulvey CM, Schröter C, Gatto L, Dikicioglu D, Fidaner IB, Christoforou A, Deery MJ, Cho LT, Niakan KK, Martinez-Arias A, Lilley KS,  (2015) &quot;Dynamic Proteomic Profiling of Extra-Embryonic Endoderm Differentiation in Mouse Embryonic Stem Cells.&quot; <i>Stem Cells</i> <b>33</b>(9):2712&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26059426 26059426]; doi: [https://dx.doi.org/10.1002/stem.2067 10.1002/stem.2067]; GPMDB: [http://gpmdb.org/data/keyword/26059426 7].
#Chang JW, Zhang W, Yeh HS, de Jong EP, Jun S, Kim KH, Bae SS, Beckman K, Hwang TH, Kim KS, Kim DH, Griffin TJ, Kuang R, Yong J,  (2015) &quot;mRNA 3'-UTR shortening is a molecular signature of mTORC1 activation.&quot; <i>Nat Commun</i> <b>6</b>:7218; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26074333 26074333]; doi: [https://dx.doi.org/10.1038/ncomms8218 10.1038/ncomms8218]; GPMDB: [http://gpmdb.org/data/keyword/26074333 1].
#Chang JW, Zhang W, Yeh HS, de Jong EP, Jun S, Kim KH, Bae SS, Beckman K, Hwang TH, Kim KS, Kim DH, Griffin TJ, Kuang R, Yong J,  (2015) &quot;mRNA 3'-UTR shortening is a molecular signature of mTORC1 activation.&quot; <i>Nat Commun</i> <b>6</b>:7218; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26074333 26074333]; doi: [https://dx.doi.org/10.1038/ncomms8218 10.1038/ncomms8218]; GPMDB: [http://gpmdb.org/data/keyword/26074333 1].
#Murphy JP, Stepanova E, Everley RA, Paulo JA, Gygi SP,  (2015) &quot;Comprehensive Temporal Protein Dynamics during the Diauxic Shift in Saccharomyces cerevisiae.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(9):2454&ndash;65; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26077900 26077900]; doi: [https://dx.doi.org/10.1074/mcp.M114.045849 10.1074/mcp.M114.045849]; GPMDB: [http://gpmdb.org/data/keyword/26077900 66].
#Murphy JP, Stepanova E, Everley RA, Paulo JA, Gygi SP,  (2015) &quot;Comprehensive Temporal Protein Dynamics during the Diauxic Shift in Saccharomyces cerevisiae.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(9):2454&ndash;65; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26077900 26077900]; doi: [https://dx.doi.org/10.1074/mcp.M114.045849 10.1074/mcp.M114.045849]; GPMDB: [http://gpmdb.org/data/keyword/26077900 66].
-
#Wiśniewski JR, Gizak A, Rakus D,  (2015) &quot;Integrating Proteomics and Enzyme Kinetics Reveals Tissue-Specific Types of the Glycolytic and Gluconeogenic Pathways.&quot; <i>J Proteome Res</i> <b>14</b>(8):3263&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26080680 26080680]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00276 10.1021/acs.jproteome.5b00276]; GPMDB: [http://gpmdb.org/data/keyword/26080680 18].
+
#WiÅ›niewski JR, Gizak A, Rakus D,  (2015) &quot;Integrating Proteomics and Enzyme Kinetics Reveals Tissue-Specific Types of the Glycolytic and Gluconeogenic Pathways.&quot; <i>J Proteome Res</i> <b>14</b>(8):3263&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26080680 26080680]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00276 10.1021/acs.jproteome.5b00276]; GPMDB: [http://gpmdb.org/data/keyword/26080680 18].
#Mui MZ, Zhou Y, Blanchette P, Chughtai N, Knight JF, Gruosso T, Papadakis AI, Huang S, Park M, Gingras AC, Branton PE,  (2015) &quot;The Human Adenovirus Type 5 E4orf4 Protein Targets Two Phosphatase Regulators of the Hippo Signaling Pathway.&quot; <i>J Virol</i> <b>89</b>(17):8855&ndash;70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26085163 26085163]; doi: [https://dx.doi.org/10.1128/JVI.03710-14 10.1128/JVI.03710-14]; GPMDB: [http://gpmdb.org/data/keyword/26085163 16].
#Mui MZ, Zhou Y, Blanchette P, Chughtai N, Knight JF, Gruosso T, Papadakis AI, Huang S, Park M, Gingras AC, Branton PE,  (2015) &quot;The Human Adenovirus Type 5 E4orf4 Protein Targets Two Phosphatase Regulators of the Hippo Signaling Pathway.&quot; <i>J Virol</i> <b>89</b>(17):8855&ndash;70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26085163 26085163]; doi: [https://dx.doi.org/10.1128/JVI.03710-14 10.1128/JVI.03710-14]; GPMDB: [http://gpmdb.org/data/keyword/26085163 16].
-
#Cehofski LJ, Kruse A, Kjærgaard B, Stensballe A, Honoré B, Vorum H,  (2015) &quot;Proteins involved in focal adhesion signaling pathways are differentially regulated in experimental branch retinal vein occlusion.&quot; <i>Exp Eye Res</i> <b>138</b>:87&ndash;95; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26086079 26086079]; doi: [https://dx.doi.org/10.1016/j.exer.2015.06.011 10.1016/j.exer.2015.06.011]; GPMDB: [http://gpmdb.org/data/keyword/26086079 48].
+
#Cehofski LJ, Kruse A, Kjærgaard B, Stensballe A, Honoré B, Vorum H,  (2015) &quot;Proteins involved in focal adhesion signaling pathways are differentially regulated in experimental branch retinal vein occlusion.&quot; <i>Exp Eye Res</i> <b>138</b>:87&ndash;95; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26086079 26086079]; doi: [https://dx.doi.org/10.1016/j.exer.2015.06.011 10.1016/j.exer.2015.06.011]; GPMDB: [http://gpmdb.org/data/keyword/26086079 48].
#Stebbing J, Zhang H, Xu Y, Grothey A, Ajuh P, Angelopoulos N, Giamas G,  (2015) &quot;Characterization of the Tyrosine Kinase-Regulated Proteome in Breast Cancer by Combined use of RNA interference (RNAi) and Stable Isotope Labeling with Amino Acids in Cell Culture (SILAC) Quantitative Proteomics.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(9):2479&ndash;92; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26089344 26089344]; doi: [https://dx.doi.org/10.1074/mcp.M115.048090 10.1074/mcp.M115.048090]; GPMDB: [http://gpmdb.org/data/keyword/26089344 370].
#Stebbing J, Zhang H, Xu Y, Grothey A, Ajuh P, Angelopoulos N, Giamas G,  (2015) &quot;Characterization of the Tyrosine Kinase-Regulated Proteome in Breast Cancer by Combined use of RNA interference (RNAi) and Stable Isotope Labeling with Amino Acids in Cell Culture (SILAC) Quantitative Proteomics.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(9):2479&ndash;92; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26089344 26089344]; doi: [https://dx.doi.org/10.1074/mcp.M115.048090 10.1074/mcp.M115.048090]; GPMDB: [http://gpmdb.org/data/keyword/26089344 370].
#Muqaku B, Slany A, Bileck A, Kreutz D, Gerner C,  (2015) &quot;Quantification of cytokines secreted by primary human cells using multiple reaction monitoring: evaluation of analytical parameters.&quot; <i>Anal Bioanal Chem</i> <b>407</b>(21):6525&ndash;36; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26092402 26092402]; doi: [https://dx.doi.org/10.1007/s00216-015-8817-9 10.1007/s00216-015-8817-9]; GPMDB: [http://gpmdb.org/data/keyword/26092402 19].
#Muqaku B, Slany A, Bileck A, Kreutz D, Gerner C,  (2015) &quot;Quantification of cytokines secreted by primary human cells using multiple reaction monitoring: evaluation of analytical parameters.&quot; <i>Anal Bioanal Chem</i> <b>407</b>(21):6525&ndash;36; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26092402 26092402]; doi: [https://dx.doi.org/10.1007/s00216-015-8817-9 10.1007/s00216-015-8817-9]; GPMDB: [http://gpmdb.org/data/keyword/26092402 19].
-
#Barco RA, Emerson D, Sylvan JB, Orcutt BN, Jacobson Meyers ME, Ramírez GA, Zhong JD, Edwards KJ,  (2015) &quot;New Insight into Microbial Iron Oxidation as Revealed by the Proteomic Profile of an Obligate Iron-Oxidizing Chemolithoautotroph.&quot; <i>Appl Environ Microbiol</i> <b>81</b>(17):5927&ndash;37; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26092463 26092463]; doi: [https://dx.doi.org/10.1128/AEM.01374-15 10.1128/AEM.01374-15]; GPMDB: [http://gpmdb.org/data/keyword/26092463 28].
+
#Barco RA, Emerson D, Sylvan JB, Orcutt BN, Jacobson Meyers ME, Ramírez GA, Zhong JD, Edwards KJ,  (2015) &quot;New Insight into Microbial Iron Oxidation as Revealed by the Proteomic Profile of an Obligate Iron-Oxidizing Chemolithoautotroph.&quot; <i>Appl Environ Microbiol</i> <b>81</b>(17):5927&ndash;37; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26092463 26092463]; doi: [https://dx.doi.org/10.1128/AEM.01374-15 10.1128/AEM.01374-15]; GPMDB: [http://gpmdb.org/data/keyword/26092463 28].
#Mei Y, Wang Y, Kumari P, Shetty AC, Clark D, Gable T, MacKerell AD, Ma MZ, Weber DJ, Yang AJ, Edelman MJ, Mao L,  (2015) &quot;A piRNA-like small RNA interacts with and modulates p-ERM proteins in human somatic cells.&quot; <i>Nat Commun</i> <b>6</b>:7316; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26095918 26095918]; doi: [https://dx.doi.org/10.1038/ncomms8316 10.1038/ncomms8316]; GPMDB: [http://gpmdb.org/data/keyword/26095918 2].
#Mei Y, Wang Y, Kumari P, Shetty AC, Clark D, Gable T, MacKerell AD, Ma MZ, Weber DJ, Yang AJ, Edelman MJ, Mao L,  (2015) &quot;A piRNA-like small RNA interacts with and modulates p-ERM proteins in human somatic cells.&quot; <i>Nat Commun</i> <b>6</b>:7316; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26095918 26095918]; doi: [https://dx.doi.org/10.1038/ncomms8316 10.1038/ncomms8316]; GPMDB: [http://gpmdb.org/data/keyword/26095918 2].
-
#Ducret A, Kux van Geijtenbeek S, Röder D, Simon S, Chin D, Berrera M, Gruenbaum L, Ji C, Cutler P,  (2015) &quot;Identification of six cell surface proteins for specific liver targeting.&quot; <i>Proteomics Clin Appl</i> <b>9</b>(7-8):651&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26097162 26097162]; doi: [https://dx.doi.org/10.1002/prca.201400194 10.1002/prca.201400194]; GPMDB: [http://gpmdb.org/data/keyword/26097162 68].
+
#Ducret A, Kux van Geijtenbeek S, Röder D, Simon S, Chin D, Berrera M, Gruenbaum L, Ji C, Cutler P,  (2015) &quot;Identification of six cell surface proteins for specific liver targeting.&quot; <i>Proteomics Clin Appl</i> <b>9</b>(7-8):651&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26097162 26097162]; doi: [https://dx.doi.org/10.1002/prca.201400194 10.1002/prca.201400194]; GPMDB: [http://gpmdb.org/data/keyword/26097162 68].
#Kosono S, Tamura M, Suzuki S, Kawamura Y, Yoshida A, Nishiyama M, Yoshida M,  (2015) &quot;Changes in the Acetylome and Succinylome of Bacillus subtilis in Response to Carbon Source.&quot; <i>PLoS One</i> <b>10</b>(6):e0131169; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26098117 26098117]; doi: [https://dx.doi.org/10.1371/journal.pone.0131169 10.1371/journal.pone.0131169]; GPMDB: [http://gpmdb.org/data/keyword/26098117 6].
#Kosono S, Tamura M, Suzuki S, Kawamura Y, Yoshida A, Nishiyama M, Yoshida M,  (2015) &quot;Changes in the Acetylome and Succinylome of Bacillus subtilis in Response to Carbon Source.&quot; <i>PLoS One</i> <b>10</b>(6):e0131169; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26098117 26098117]; doi: [https://dx.doi.org/10.1371/journal.pone.0131169 10.1371/journal.pone.0131169]; GPMDB: [http://gpmdb.org/data/keyword/26098117 6].
-
#Clabaut A, Grare C, Léger T, Hardouin P, Broux O,  (2015) &quot;Variations of secretome profiles according to conditioned medium preparation: The example of human mesenchymal stem cell-derived adipocytes.&quot; <i>Electrophoresis</i> <b>36</b>(20):2587&ndash;93; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26105977 26105977]; doi: [https://dx.doi.org/10.1002/elps.201500086 10.1002/elps.201500086]; GPMDB: [http://gpmdb.org/data/keyword/26105977 6].
+
#Clabaut A, Grare C, Léger T, Hardouin P, Broux O,  (2015) &quot;Variations of secretome profiles according to conditioned medium preparation: The example of human mesenchymal stem cell-derived adipocytes.&quot; <i>Electrophoresis</i> <b>36</b>(20):2587&ndash;93; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26105977 26105977]; doi: [https://dx.doi.org/10.1002/elps.201500086 10.1002/elps.201500086]; GPMDB: [http://gpmdb.org/data/keyword/26105977 6].
#Chen Y, Li Y, Zhong J, Zhang J, Chen Z, Yang L, Cao X, He QY, Zhang G, Wang T,  (2015) &quot;Identification of Missing Proteins Defined by Chromosome-Centric Proteome Project in the Cytoplasmic Detergent-Insoluble Proteins.&quot; <i>J Proteome Res</i> <b>14</b>(9):3693&ndash;709; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26108252 26108252]; doi: [https://dx.doi.org/10.1021/pr501103r 10.1021/pr501103r]; GPMDB: [http://gpmdb.org/data/keyword/26108252 46].
#Chen Y, Li Y, Zhong J, Zhang J, Chen Z, Yang L, Cao X, He QY, Zhang G, Wang T,  (2015) &quot;Identification of Missing Proteins Defined by Chromosome-Centric Proteome Project in the Cytoplasmic Detergent-Insoluble Proteins.&quot; <i>J Proteome Res</i> <b>14</b>(9):3693&ndash;709; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26108252 26108252]; doi: [https://dx.doi.org/10.1021/pr501103r 10.1021/pr501103r]; GPMDB: [http://gpmdb.org/data/keyword/26108252 46].
-
#Uebbing S, Konzer A, Xu L, Backström N, Brunström B, Bergquist J, Ellegren H,  (2015) &quot;Quantitative Mass Spectrometry Reveals Partial Translational Regulation for Dosage Compensation in Chicken.&quot; <i>Mol Biol Evol</i> <b>32</b>(10):2716&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26108680 26108680]; doi: [https://dx.doi.org/10.1093/molbev/msv147 10.1093/molbev/msv147]; GPMDB: [http://gpmdb.org/data/keyword/26108680 30].
+
#Uebbing S, Konzer A, Xu L, Backström N, Brunström B, Bergquist J, Ellegren H,  (2015) &quot;Quantitative Mass Spectrometry Reveals Partial Translational Regulation for Dosage Compensation in Chicken.&quot; <i>Mol Biol Evol</i> <b>32</b>(10):2716&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26108680 26108680]; doi: [https://dx.doi.org/10.1093/molbev/msv147 10.1093/molbev/msv147]; GPMDB: [http://gpmdb.org/data/keyword/26108680 30].
#Zhu M, Wu G, Li YX, Stevens JK, Fan CX, Spang A, Dong MQ,  (2015) &quot;Serum- and Glucocorticoid-Inducible Kinase-1 (SGK-1) Plays a Role in Membrane Trafficking in Caenorhabditis elegans.&quot; <i>PLoS One</i> <b>10</b>(6):e0130778; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26115433 26115433]; doi: [https://dx.doi.org/10.1371/journal.pone.0130778 10.1371/journal.pone.0130778]; GPMDB: [http://gpmdb.org/data/keyword/26115433 2].
#Zhu M, Wu G, Li YX, Stevens JK, Fan CX, Spang A, Dong MQ,  (2015) &quot;Serum- and Glucocorticoid-Inducible Kinase-1 (SGK-1) Plays a Role in Membrane Trafficking in Caenorhabditis elegans.&quot; <i>PLoS One</i> <b>10</b>(6):e0130778; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26115433 26115433]; doi: [https://dx.doi.org/10.1371/journal.pone.0130778 10.1371/journal.pone.0130778]; GPMDB: [http://gpmdb.org/data/keyword/26115433 2].
-
#Marcon E, Jain H, Bhattacharya A, Guo H, Phanse S, Pu S, Byram G, Collins BC, Dowdell E, Fenner M, Guo X, Hutchinson A, Kennedy JJ, Krastins B, Larsen B, Lin ZY, Lopez MF, Loppnau P, Miersch S, Nguyen T, Olsen JB, Paduch M, Ravichandran M, Seitova A, Vadali G, Vogelsang MS, Whiteaker JR, Zhong G, Zhong N, Zhao L, Aebersold R, Arrowsmith CH, Emili A, Frappier L, Gingras AC, Gstaiger M, Paulovich AG, Koide S, Kossiakoff AA, Sidhu SS, Wodak SJ, Gräslund S, Greenblatt JF, Edwards AM,  (2015) &quot;Assessment of a method to characterize antibody selectivity and specificity for use in immunoprecipitation.&quot; <i>Nat Methods</i> <b>12</b>(8):725&ndash;31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26121405 26121405]; doi: [https://dx.doi.org/10.1038/nmeth.3472 10.1038/nmeth.3472]; GPMDB: [http://gpmdb.org/data/keyword/26121405 1220].
+
#Marcon E, Jain H, Bhattacharya A, Guo H, Phanse S, Pu S, Byram G, Collins BC, Dowdell E, Fenner M, Guo X, Hutchinson A, Kennedy JJ, Krastins B, Larsen B, Lin ZY, Lopez MF, Loppnau P, Miersch S, Nguyen T, Olsen JB, Paduch M, Ravichandran M, Seitova A, Vadali G, Vogelsang MS, Whiteaker JR, Zhong G, Zhong N, Zhao L, Aebersold R, Arrowsmith CH, Emili A, Frappier L, Gingras AC, Gstaiger M, Paulovich AG, Koide S, Kossiakoff AA, Sidhu SS, Wodak SJ, Gräslund S, Greenblatt JF, Edwards AM,  (2015) &quot;Assessment of a method to characterize antibody selectivity and specificity for use in immunoprecipitation.&quot; <i>Nat Methods</i> <b>12</b>(8):725&ndash;31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26121405 26121405]; doi: [https://dx.doi.org/10.1038/nmeth.3472 10.1038/nmeth.3472]; GPMDB: [http://gpmdb.org/data/keyword/26121405 1220].
-
#Cardona M, López JA, Serafín A, Rongvaux A, Inserte J, García-Dorado D, Flavell R, Llovera M, Cañas X, Vázquez J, Sanchis D,  (2015) &quot;Executioner Caspase-3 and 7 Deficiency Reduces Myocyte Number in the Developing Mouse Heart.&quot; <i>PLoS One</i> <b>10</b>(6):e0131411; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26121671 26121671]; doi: [https://dx.doi.org/10.1371/journal.pone.0131411 10.1371/journal.pone.0131411]; GPMDB: [http://gpmdb.org/data/keyword/26121671 8].
+
#Cardona M, López JA, Serafín A, Rongvaux A, Inserte J, García-Dorado D, Flavell R, Llovera M, Cañas X, Vázquez J, Sanchis D,  (2015) &quot;Executioner Caspase-3 and 7 Deficiency Reduces Myocyte Number in the Developing Mouse Heart.&quot; <i>PLoS One</i> <b>10</b>(6):e0131411; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26121671 26121671]; doi: [https://dx.doi.org/10.1371/journal.pone.0131411 10.1371/journal.pone.0131411]; GPMDB: [http://gpmdb.org/data/keyword/26121671 8].
#Herbst FA, Danielsen HN, Wimmer R, Nielsen PH, Dueholm MS,  (2015) &quot;Label-free quantification reveals major proteomic changes in Pseudomonas putida F1 during the exponential growth phase.&quot; <i>Proteomics</i> <b>15</b>(18):3244&ndash;52; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26122999 26122999]; doi: [https://dx.doi.org/10.1002/pmic.201400482 10.1002/pmic.201400482]; GPMDB: [http://gpmdb.org/data/keyword/26122999 16].
#Herbst FA, Danielsen HN, Wimmer R, Nielsen PH, Dueholm MS,  (2015) &quot;Label-free quantification reveals major proteomic changes in Pseudomonas putida F1 during the exponential growth phase.&quot; <i>Proteomics</i> <b>15</b>(18):3244&ndash;52; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26122999 26122999]; doi: [https://dx.doi.org/10.1002/pmic.201400482 10.1002/pmic.201400482]; GPMDB: [http://gpmdb.org/data/keyword/26122999 16].
#Sghaier H, Hezbri K, Ghodhbane-Gtari F, Pujic P, Sen A, Daffonchio D, Boudabous A, Tisa LS, Klenk HP, Armengaud J, Normand P, Gtari M,  (2016) &quot;Stone-dwelling actinobacteria Blastococcus saxobsidens, Modestobacter marinus and Geodermatophilus obscurus proteogenomes.&quot; <i>ISME J</i> <b>10</b>(1):21&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26125681 26125681]; doi: [https://dx.doi.org/10.1038/ismej.2015.108 10.1038/ismej.2015.108]; GPMDB: [http://gpmdb.org/data/keyword/26125681 9].
#Sghaier H, Hezbri K, Ghodhbane-Gtari F, Pujic P, Sen A, Daffonchio D, Boudabous A, Tisa LS, Klenk HP, Armengaud J, Normand P, Gtari M,  (2016) &quot;Stone-dwelling actinobacteria Blastococcus saxobsidens, Modestobacter marinus and Geodermatophilus obscurus proteogenomes.&quot; <i>ISME J</i> <b>10</b>(1):21&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26125681 26125681]; doi: [https://dx.doi.org/10.1038/ismej.2015.108 10.1038/ismej.2015.108]; GPMDB: [http://gpmdb.org/data/keyword/26125681 9].
-
#Carapito C, Lane L, Benama M, Opsomer A, Mouton-Barbosa E, Garrigues L, Gonzalez de Peredo A, Burel A, Bruley C, Gateau A, Bouyssié D, Jaquinod M, Cianferani S, Burlet-Schiltz O, Van Dorsselaer A, Garin J, Vandenbrouck Y,  (2015) &quot;Computational and Mass-Spectrometry-Based Workflow for the Discovery and Validation of Missing Human Proteins: Application to Chromosomes 2 and 14.&quot; <i>J Proteome Res</i> <b>14</b>(9):3621&ndash;34; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26132440 26132440]; doi: [https://dx.doi.org/10.1021/pr5010345 10.1021/pr5010345]; GPMDB: [http://gpmdb.org/data/keyword/26132440 58].
+
#Carapito C, Lane L, Benama M, Opsomer A, Mouton-Barbosa E, Garrigues L, Gonzalez de Peredo A, Burel A, Bruley C, Gateau A, Bouyssié D, Jaquinod M, Cianferani S, Burlet-Schiltz O, Van Dorsselaer A, Garin J, Vandenbrouck Y,  (2015) &quot;Computational and Mass-Spectrometry-Based Workflow for the Discovery and Validation of Missing Human Proteins: Application to Chromosomes 2 and 14.&quot; <i>J Proteome Res</i> <b>14</b>(9):3621&ndash;34; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26132440 26132440]; doi: [https://dx.doi.org/10.1021/pr5010345 10.1021/pr5010345]; GPMDB: [http://gpmdb.org/data/keyword/26132440 58].
-
#Dislich B, Wohlrab F, Bachhuber T, Müller SA, Kuhn PH, Hogl S, Meyer-Luehmann M, Lichtenthaler SF,  (2015) &quot;Label-free Quantitative Proteomics of Mouse Cerebrospinal Fluid Detects β-Site APP Cleaving Enzyme (BACE1) Protease Substrates In Vivo.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(10):2550&ndash;63; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26139848 26139848]; doi: [https://dx.doi.org/10.1074/mcp.M114.041533 10.1074/mcp.M114.041533]; GPMDB: [http://gpmdb.org/data/keyword/26139848 26].
+
#Dislich B, Wohlrab F, Bachhuber T, Müller SA, Kuhn PH, Hogl S, Meyer-Luehmann M, Lichtenthaler SF,  (2015) &quot;Label-free Quantitative Proteomics of Mouse Cerebrospinal Fluid Detects β-Site APP Cleaving Enzyme (BACE1) Protease Substrates In Vivo.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(10):2550&ndash;63; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26139848 26139848]; doi: [https://dx.doi.org/10.1074/mcp.M114.041533 10.1074/mcp.M114.041533]; GPMDB: [http://gpmdb.org/data/keyword/26139848 26].
-
#Swaney DL, Rodríguez-Mias RA, Villén J,  (2015) &quot;Phosphorylation of ubiquitin at Ser65 affects its polymerization, targets, and proteome-wide turnover.&quot; <i>EMBO Rep</i> <b>16</b>(9):1131&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26142280 26142280]; doi: [https://dx.doi.org/10.15252/embr.201540298 10.15252/embr.201540298]; GPMDB: [http://gpmdb.org/data/keyword/26142280 56].
+
#Swaney DL, Rodríguez-Mias RA, Villén J,  (2015) &quot;Phosphorylation of ubiquitin at Ser65 affects its polymerization, targets, and proteome-wide turnover.&quot; <i>EMBO Rep</i> <b>16</b>(9):1131&ndash;44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26142280 26142280]; doi: [https://dx.doi.org/10.15252/embr.201540298 10.15252/embr.201540298]; GPMDB: [http://gpmdb.org/data/keyword/26142280 56].
#Su N, Zhang C, Zhang Y, Wang Z, Fan F, Zhao M, Wu F, Gao Y, Li Y, Chen L, Tian M, Zhang T, Wen B, Sensang N, Xiong Z, Wu S, Liu S, Yang P, Zhen B, Zhu Y, He F, Xu P,  (2015) &quot;Special Enrichment Strategies Greatly Increase the Efficiency of Missing Proteins Identification from Regular Proteome Samples.&quot; <i>J Proteome Res</i> <b>14</b>(9):3680&ndash;92; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26144840 26144840]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00481 10.1021/acs.jproteome.5b00481]; GPMDB: [http://gpmdb.org/data/keyword/26144840 428].
#Su N, Zhang C, Zhang Y, Wang Z, Fan F, Zhao M, Wu F, Gao Y, Li Y, Chen L, Tian M, Zhang T, Wen B, Sensang N, Xiong Z, Wu S, Liu S, Yang P, Zhen B, Zhu Y, He F, Xu P,  (2015) &quot;Special Enrichment Strategies Greatly Increase the Efficiency of Missing Proteins Identification from Regular Proteome Samples.&quot; <i>J Proteome Res</i> <b>14</b>(9):3680&ndash;92; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26144840 26144840]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00481 10.1021/acs.jproteome.5b00481]; GPMDB: [http://gpmdb.org/data/keyword/26144840 428].
-
#Ajeian JN, Horton ER, Astudillo P, Byron A, Askari JA, Millon-Frémillon A, Knight D, Kimber SJ, Humphries MJ, Humphries JD,  (2016) &quot;Proteomic analysis of integrin-associated complexes from mesenchymal stem cells.&quot; <i>Proteomics Clin Appl</i> <b>10</b>(1):51&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26147903 26147903]; doi: [https://dx.doi.org/10.1002/prca.201500033 10.1002/prca.201500033]; GPMDB: [http://gpmdb.org/data/keyword/26147903 177].
+
#Ajeian JN, Horton ER, Astudillo P, Byron A, Askari JA, Millon-Frémillon A, Knight D, Kimber SJ, Humphries MJ, Humphries JD,  (2016) &quot;Proteomic analysis of integrin-associated complexes from mesenchymal stem cells.&quot; <i>Proteomics Clin Appl</i> <b>10</b>(1):51&ndash;7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26147903 26147903]; doi: [https://dx.doi.org/10.1002/prca.201500033 10.1002/prca.201500033]; GPMDB: [http://gpmdb.org/data/keyword/26147903 177].
#Hoover H, Li J, Marchese J, Rothwell C, Borawoski J, Jeffery DA, Gaither LA, Finkel N,  (2015) &quot;Quantitative Proteomic Verification of Membrane Proteins as Potential Therapeutic Targets Located in the 11q13 Amplicon in Cancers.&quot; <i>J Proteome Res</i> <b>14</b>(9):3670&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26151158 26151158]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00508 10.1021/acs.jproteome.5b00508]; GPMDB: [http://gpmdb.org/data/keyword/26151158 27].
#Hoover H, Li J, Marchese J, Rothwell C, Borawoski J, Jeffery DA, Gaither LA, Finkel N,  (2015) &quot;Quantitative Proteomic Verification of Membrane Proteins as Potential Therapeutic Targets Located in the 11q13 Amplicon in Cancers.&quot; <i>J Proteome Res</i> <b>14</b>(9):3670&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26151158 26151158]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00508 10.1021/acs.jproteome.5b00508]; GPMDB: [http://gpmdb.org/data/keyword/26151158 27].
#Huber RJ, O'Day DH,  (2015) &quot;Proteomic profiling of the extracellular matrix (slime sheath) of Dictyostelium discoideum.&quot; <i>Proteomics</i> <b>15</b>(19):3315&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26152465 26152465]; doi: [https://dx.doi.org/10.1002/pmic.201500143 10.1002/pmic.201500143]; GPMDB: [http://gpmdb.org/data/keyword/26152465 23].
#Huber RJ, O'Day DH,  (2015) &quot;Proteomic profiling of the extracellular matrix (slime sheath) of Dictyostelium discoideum.&quot; <i>Proteomics</i> <b>15</b>(19):3315&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26152465 26152465]; doi: [https://dx.doi.org/10.1002/pmic.201500143 10.1002/pmic.201500143]; GPMDB: [http://gpmdb.org/data/keyword/26152465 23].
-
#Moche M, Schlüter R, Bernhardt J, Plate K, Riedel K, Hecker M, Becher D,  (2015) &quot;Time-Resolved Analysis of Cytosolic and Surface-Associated Proteins of Staphylococcus aureus HG001 under Planktonic and Biofilm Conditions.&quot; <i>J Proteome Res</i> <b>14</b>(9):3804&ndash;22; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26152824 26152824]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00148 10.1021/acs.jproteome.5b00148]; GPMDB: [http://gpmdb.org/data/keyword/26152824 924].
+
#Moche M, Schlüter R, Bernhardt J, Plate K, Riedel K, Hecker M, Becher D,  (2015) &quot;Time-Resolved Analysis of Cytosolic and Surface-Associated Proteins of Staphylococcus aureus HG001 under Planktonic and Biofilm Conditions.&quot; <i>J Proteome Res</i> <b>14</b>(9):3804&ndash;22; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26152824 26152824]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00148 10.1021/acs.jproteome.5b00148]; GPMDB: [http://gpmdb.org/data/keyword/26152824 924].
-
#Caron E, Espona L, Kowalewski DJ, Schuster H, Ternette N, Alpízar A, Schittenhelm RB, Ramarathinam SH, Lindestam Arlehamn CS, Chiek Koh C, Gillet LC, Rabsteyn A, Navarro P, Kim S, Lam H, Sturm T, Marcilla M, Sette A, Campbell DS, Deutsch EW, Moritz RL, Purcell AW, Rammensee HG, Stevanovic S, Aebersold R,  (2015) &quot;An open-source computational and data resource to analyze digital maps of immunopeptidomes.&quot; <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26154972 26154972]; doi: [https://dx.doi.org/10.7554/eLife.07661 10.7554/eLife.07661]; GPMDB: [http://gpmdb.org/data/keyword/26154972 70].
+
#Caron E, Espona L, Kowalewski DJ, Schuster H, Ternette N, Alpízar A, Schittenhelm RB, Ramarathinam SH, Lindestam Arlehamn CS, Chiek Koh C, Gillet LC, Rabsteyn A, Navarro P, Kim S, Lam H, Sturm T, Marcilla M, Sette A, Campbell DS, Deutsch EW, Moritz RL, Purcell AW, Rammensee HG, Stevanovic S, Aebersold R,  (2015) &quot;An open-source computational and data resource to analyze digital maps of immunopeptidomes.&quot; <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26154972 26154972]; doi: [https://dx.doi.org/10.7554/eLife.07661 10.7554/eLife.07661]; GPMDB: [http://gpmdb.org/data/keyword/26154972 70].
-
#Jumeau F, Com E, Lane L, Duek P, Lagarrigue M, Lavigne R, Guillot L, Rondel K, Gateau A, Melaine N, Guével B, Sergeant N, Mitchell V, Pineau C,  (2015) &quot;Human Spermatozoa as a Model for Detecting Missing Proteins in the Context of the Chromosome-Centric Human Proteome Project.&quot; <i>J Proteome Res</i> <b>14</b>(9):3606&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26168773 26168773]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00170 10.1021/acs.jproteome.5b00170]; GPMDB: [http://gpmdb.org/data/keyword/26168773 63].
+
#Jumeau F, Com E, Lane L, Duek P, Lagarrigue M, Lavigne R, Guillot L, Rondel K, Gateau A, Melaine N, Guével B, Sergeant N, Mitchell V, Pineau C,  (2015) &quot;Human Spermatozoa as a Model for Detecting Missing Proteins in the Context of the Chromosome-Centric Human Proteome Project.&quot; <i>J Proteome Res</i> <b>14</b>(9):3606&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26168773 26168773]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00170 10.1021/acs.jproteome.5b00170]; GPMDB: [http://gpmdb.org/data/keyword/26168773 63].
#Schiller HB, Fernandez IE, Burgstaller G, Schaab C, Scheltema RA, Schwarzmayr T, Strom TM, Eickelberg O, Mann M,  (2015) &quot;Time- and compartment-resolved proteome profiling of the extracellular niche in lung injury and repair.&quot; <i>Mol Syst Biol</i> <b>11</b>(7):819; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26174933 26174933]; GPMDB: [http://gpmdb.org/data/keyword/26174933 228].
#Schiller HB, Fernandez IE, Burgstaller G, Schaab C, Scheltema RA, Schwarzmayr T, Strom TM, Eickelberg O, Mann M,  (2015) &quot;Time- and compartment-resolved proteome profiling of the extracellular niche in lung injury and repair.&quot; <i>Mol Syst Biol</i> <b>11</b>(7):819; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26174933 26174933]; GPMDB: [http://gpmdb.org/data/keyword/26174933 228].
#Morley S, You S, Pollan S, Choi J, Zhou B, Hager MH, Steadman K, Spinelli C, Rajendran K, Gertych A, Kim J, Adam RM, Yang W, Krishnan R, Knudsen BS, Di Vizio D, Freeman MR,  (2015) &quot;Regulation of microtubule dynamics by DIAPH3 influences amoeboid tumor cell mechanics and sensitivity to taxanes.&quot; <i>Sci Rep</i> <b>5</b>:12136; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26179371 26179371]; doi: [https://dx.doi.org/10.1038/srep12136 10.1038/srep12136]; GPMDB: [http://gpmdb.org/data/keyword/26179371 16].
#Morley S, You S, Pollan S, Choi J, Zhou B, Hager MH, Steadman K, Spinelli C, Rajendran K, Gertych A, Kim J, Adam RM, Yang W, Krishnan R, Knudsen BS, Di Vizio D, Freeman MR,  (2015) &quot;Regulation of microtubule dynamics by DIAPH3 influences amoeboid tumor cell mechanics and sensitivity to taxanes.&quot; <i>Sci Rep</i> <b>5</b>:12136; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26179371 26179371]; doi: [https://dx.doi.org/10.1038/srep12136 10.1038/srep12136]; GPMDB: [http://gpmdb.org/data/keyword/26179371 16].
#Feng S, Powell SM, Wilson R, Bowman JP,  (2015) &quot;Proteomic Insight into Functional Changes of Proteorhodopsin-Containing Bacterial Species Psychroflexus torquis under Different Illumination and Salinity Levels.&quot; <i>J Proteome Res</i> <b>14</b>(9):3848&ndash;58; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26179671 26179671]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00241 10.1021/acs.jproteome.5b00241]; GPMDB: [http://gpmdb.org/data/keyword/26179671 72].
#Feng S, Powell SM, Wilson R, Bowman JP,  (2015) &quot;Proteomic Insight into Functional Changes of Proteorhodopsin-Containing Bacterial Species Psychroflexus torquis under Different Illumination and Salinity Levels.&quot; <i>J Proteome Res</i> <b>14</b>(9):3848&ndash;58; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26179671 26179671]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00241 10.1021/acs.jproteome.5b00241]; GPMDB: [http://gpmdb.org/data/keyword/26179671 72].
#Selvan LD, Sreenivasamurthy SK, Kumar S, Yelamanchi SD, Madugundu AK, Anil AK, Renuse S, Nair BG, Gowda H, Mathur PP, Satishchandra P, Shankar SK, Mahadevan A, Keshava Prasad TS,  (2015) &quot;Characterization of host response to Cryptococcus neoformans through quantitative proteomic analysis of cryptococcal meningitis co-infected with HIV.&quot; <i>Mol Biosyst</i> <b>11</b>(9):2529&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26181685 26181685]; doi: [https://dx.doi.org/10.1039/c5mb00187k 10.1039/c5mb00187k]; GPMDB: [http://gpmdb.org/data/keyword/26181685 1].
#Selvan LD, Sreenivasamurthy SK, Kumar S, Yelamanchi SD, Madugundu AK, Anil AK, Renuse S, Nair BG, Gowda H, Mathur PP, Satishchandra P, Shankar SK, Mahadevan A, Keshava Prasad TS,  (2015) &quot;Characterization of host response to Cryptococcus neoformans through quantitative proteomic analysis of cryptococcal meningitis co-infected with HIV.&quot; <i>Mol Biosyst</i> <b>11</b>(9):2529&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26181685 26181685]; doi: [https://dx.doi.org/10.1039/c5mb00187k 10.1039/c5mb00187k]; GPMDB: [http://gpmdb.org/data/keyword/26181685 1].
-
#Hünten S, Kaller M, Drepper F, Oeljeklaus S, Bonfert T, Erhard F, Dueck A, Eichner N, Friedel CC, Meister G, Zimmer R, Warscheid B, Hermeking H,  (2015) &quot;p53-Regulated Networks of Protein, mRNA, miRNA, and lncRNA Expression Revealed by Integrated Pulsed Stable Isotope Labeling With Amino Acids in Cell Culture (pSILAC) and Next Generation Sequencing (NGS) Analyses.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(10):2609&ndash;29; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26183718 26183718]; doi: [https://dx.doi.org/10.1074/mcp.M115.050237 10.1074/mcp.M115.050237]; GPMDB: [http://gpmdb.org/data/keyword/26183718 120].
+
#Hünten S, Kaller M, Drepper F, Oeljeklaus S, Bonfert T, Erhard F, Dueck A, Eichner N, Friedel CC, Meister G, Zimmer R, Warscheid B, Hermeking H,  (2015) &quot;p53-Regulated Networks of Protein, mRNA, miRNA, and lncRNA Expression Revealed by Integrated Pulsed Stable Isotope Labeling With Amino Acids in Cell Culture (pSILAC) and Next Generation Sequencing (NGS) Analyses.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(10):2609&ndash;29; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26183718 26183718]; doi: [https://dx.doi.org/10.1074/mcp.M115.050237 10.1074/mcp.M115.050237]; GPMDB: [http://gpmdb.org/data/keyword/26183718 120].
#Bish R, Cuevas-Polo N, Cheng Z, Hambardzumyan D, Munschauer M, Landthaler M, Vogel C,  (2015) &quot;Comprehensive Protein Interactome Analysis of a Key RNA Helicase: Detection of Novel Stress Granule Proteins.&quot; <i>Biomolecules</i> <b>5</b>(3):1441&ndash;66; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26184334 26184334]; doi: [https://dx.doi.org/10.3390/biom5031441 10.3390/biom5031441]; GPMDB: [http://gpmdb.org/data/keyword/26184334 50].
#Bish R, Cuevas-Polo N, Cheng Z, Hambardzumyan D, Munschauer M, Landthaler M, Vogel C,  (2015) &quot;Comprehensive Protein Interactome Analysis of a Key RNA Helicase: Detection of Novel Stress Granule Proteins.&quot; <i>Biomolecules</i> <b>5</b>(3):1441&ndash;66; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26184334 26184334]; doi: [https://dx.doi.org/10.3390/biom5031441 10.3390/biom5031441]; GPMDB: [http://gpmdb.org/data/keyword/26184334 50].
-
#Nyström A, Thriene K, Mittapalli V, Kern JS, Kiritsi D, Dengjel J, Bruckner-Tuderman L,  (2015) &quot;Losartan ameliorates dystrophic epidermolysis bullosa and uncovers new disease mechanisms.&quot; <i>EMBO Mol Med</i> <b>7</b>(9):1211&ndash;28; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26194911 26194911]; doi: [https://dx.doi.org/10.15252/emmm.201505061 10.15252/emmm.201505061]; GPMDB: [http://gpmdb.org/data/keyword/26194911 110].
+
#Nyström A, Thriene K, Mittapalli V, Kern JS, Kiritsi D, Dengjel J, Bruckner-Tuderman L,  (2015) &quot;Losartan ameliorates dystrophic epidermolysis bullosa and uncovers new disease mechanisms.&quot; <i>EMBO Mol Med</i> <b>7</b>(9):1211&ndash;28; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26194911 26194911]; doi: [https://dx.doi.org/10.15252/emmm.201505061 10.15252/emmm.201505061]; GPMDB: [http://gpmdb.org/data/keyword/26194911 110].
#Zheng B, Zhao D, Zhang P, Shen C, Guo Y, Zhou T, Guo X, Zhou Z, Sha J,  (2015) &quot;Quantitative Proteomics Reveals the Essential Roles of Stromal Interaction Molecule 1 (STIM1) in the Testicular Cord Formation in Mouse Testis.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(10):2682&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26199344 26199344]; doi: [https://dx.doi.org/10.1074/mcp.M115.049569 10.1074/mcp.M115.049569]; GPMDB: [http://gpmdb.org/data/keyword/26199344 2].
#Zheng B, Zhao D, Zhang P, Shen C, Guo Y, Zhou T, Guo X, Zhou Z, Sha J,  (2015) &quot;Quantitative Proteomics Reveals the Essential Roles of Stromal Interaction Molecule 1 (STIM1) in the Testicular Cord Formation in Mouse Testis.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(10):2682&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26199344 26199344]; doi: [https://dx.doi.org/10.1074/mcp.M115.049569 10.1074/mcp.M115.049569]; GPMDB: [http://gpmdb.org/data/keyword/26199344 2].
#Courtney DG, Poulsen ET, Kennedy S, Moore JE, Atkinson SD, Maurizi E, Nesbit MA, Moore CB, Enghild JJ,  (2015) &quot;Protein Composition of TGFBI-R124C- and TGFBI-R555W-Associated Aggregates Suggests Multiple Mechanisms Leading to Lattice and Granular Corneal Dystrophy.&quot; <i>Invest Ophthalmol Vis Sci</i> <b>56</b>(8):4653&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26207300 26207300]; doi: [https://dx.doi.org/10.1167/iovs.15-16922 10.1167/iovs.15-16922]; GPMDB: [http://gpmdb.org/data/keyword/26207300 39].
#Courtney DG, Poulsen ET, Kennedy S, Moore JE, Atkinson SD, Maurizi E, Nesbit MA, Moore CB, Enghild JJ,  (2015) &quot;Protein Composition of TGFBI-R124C- and TGFBI-R555W-Associated Aggregates Suggests Multiple Mechanisms Leading to Lattice and Granular Corneal Dystrophy.&quot; <i>Invest Ophthalmol Vis Sci</i> <b>56</b>(8):4653&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26207300 26207300]; doi: [https://dx.doi.org/10.1167/iovs.15-16922 10.1167/iovs.15-16922]; GPMDB: [http://gpmdb.org/data/keyword/26207300 39].
-
#Díez P, Droste C, Dégano RM, González-Muñoz M, Ibarrola N, Pérez-Andrés M, Garin-Muga A, Segura V, Marko-Varga G, LaBaer J, Orfao A, Corrales FJ, De Las Rivas J, Fuentes M,  (2015) &quot;Integration of Proteomics and Transcriptomics Data Sets for the Analysis of a Lymphoma B-Cell Line in the Context of the Chromosome-Centric Human Proteome Project.&quot; <i>J Proteome Res</i> <b>14</b>(9):3530&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26216070 26216070]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00474 10.1021/acs.jproteome.5b00474]; GPMDB: [http://gpmdb.org/data/keyword/26216070 60].
+
#Díez P, Droste C, Dégano RM, González-Muñoz M, Ibarrola N, Pérez-Andrés M, Garin-Muga A, Segura V, Marko-Varga G, LaBaer J, Orfao A, Corrales FJ, De Las Rivas J, Fuentes M,  (2015) &quot;Integration of Proteomics and Transcriptomics Data Sets for the Analysis of a Lymphoma B-Cell Line in the Context of the Chromosome-Centric Human Proteome Project.&quot; <i>J Proteome Res</i> <b>14</b>(9):3530&ndash;40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26216070 26216070]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00474 10.1021/acs.jproteome.5b00474]; GPMDB: [http://gpmdb.org/data/keyword/26216070 60].
#Berger ST, Ahmed S, Muntel J, Cuevas Polo N, Bachur R, Kentsis A, Steen J, Steen H,  (2015) &quot;MStern Blotting-High Throughput Polyvinylidene Fluoride (PVDF) Membrane-Based Proteomic Sample Preparation for 96-Well Plates.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(10):2814&ndash;23; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26223766 26223766]; doi: [https://dx.doi.org/10.1074/mcp.O115.049650 10.1074/mcp.O115.049650]; GPMDB: [http://gpmdb.org/data/keyword/26223766 113].
#Berger ST, Ahmed S, Muntel J, Cuevas Polo N, Bachur R, Kentsis A, Steen J, Steen H,  (2015) &quot;MStern Blotting-High Throughput Polyvinylidene Fluoride (PVDF) Membrane-Based Proteomic Sample Preparation for 96-Well Plates.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(10):2814&ndash;23; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26223766 26223766]; doi: [https://dx.doi.org/10.1074/mcp.O115.049650 10.1074/mcp.O115.049650]; GPMDB: [http://gpmdb.org/data/keyword/26223766 113].
#Woo J, Han D, Park J, Kim SJ, Kim Y,  (2015) &quot;In-depth characterization of the secretome of mouse CNS cell lines by LC-MS/MS without prefractionation.&quot; <i>Proteomics</i> <b>15</b>(21):3617&ndash;22; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26227174 26227174]; doi: [https://dx.doi.org/10.1002/pmic.201400623 10.1002/pmic.201400623]; GPMDB: [http://gpmdb.org/data/keyword/26227174 27].
#Woo J, Han D, Park J, Kim SJ, Kim Y,  (2015) &quot;In-depth characterization of the secretome of mouse CNS cell lines by LC-MS/MS without prefractionation.&quot; <i>Proteomics</i> <b>15</b>(21):3617&ndash;22; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26227174 26227174]; doi: [https://dx.doi.org/10.1002/pmic.201400623 10.1002/pmic.201400623]; GPMDB: [http://gpmdb.org/data/keyword/26227174 27].
#Guo H, Garcia-Vedrenne AE, Isserlin R, Lugowski A, Morada A, Sun A, Miao Y, Kuzmanov U, Wan C, Ma H, Foltz K, Emili A,  (2015) &quot;Phosphoproteomic network analysis in the sea urchin Strongylocentrotus purpuratus reveals new candidates in egg activation.&quot; <i>Proteomics</i> <b>15</b>(23-24):4080&ndash;95; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26227301 26227301]; doi: [https://dx.doi.org/10.1002/pmic.201500159 10.1002/pmic.201500159]; GPMDB: [http://gpmdb.org/data/keyword/26227301 182].
#Guo H, Garcia-Vedrenne AE, Isserlin R, Lugowski A, Morada A, Sun A, Miao Y, Kuzmanov U, Wan C, Ma H, Foltz K, Emili A,  (2015) &quot;Phosphoproteomic network analysis in the sea urchin Strongylocentrotus purpuratus reveals new candidates in egg activation.&quot; <i>Proteomics</i> <b>15</b>(23-24):4080&ndash;95; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26227301 26227301]; doi: [https://dx.doi.org/10.1002/pmic.201500159 10.1002/pmic.201500159]; GPMDB: [http://gpmdb.org/data/keyword/26227301 182].
#Na YR, Hong JH, Lee MY, Jung JH, Jung D, Kim YW, Son D, Choi M, Kim KP, Seok SH 2nd,  (2015) &quot;Proteomic Analysis Reveals Distinct Metabolic Differences Between Granulocyte-Macrophage Colony Stimulating Factor (GM-CSF) and Macrophage Colony Stimulating Factor (M-CSF) Grown Macrophages Derived from Murine Bone Marrow Cells.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(10):2722&ndash;32; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26229149 26229149]; doi: [https://dx.doi.org/10.1074/mcp.M115.048744 10.1074/mcp.M115.048744]; GPMDB: [http://gpmdb.org/data/keyword/26229149 16].
#Na YR, Hong JH, Lee MY, Jung JH, Jung D, Kim YW, Son D, Choi M, Kim KP, Seok SH 2nd,  (2015) &quot;Proteomic Analysis Reveals Distinct Metabolic Differences Between Granulocyte-Macrophage Colony Stimulating Factor (GM-CSF) and Macrophage Colony Stimulating Factor (M-CSF) Grown Macrophages Derived from Murine Bone Marrow Cells.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(10):2722&ndash;32; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26229149 26229149]; doi: [https://dx.doi.org/10.1074/mcp.M115.048744 10.1074/mcp.M115.048744]; GPMDB: [http://gpmdb.org/data/keyword/26229149 16].
-
#Haurogné K, Pavlovic M, Rogniaux H, Bach JM, Lieubeau B,  (2015) &quot;Type 1 Diabetes Prone NOD Mice Have Diminished Cxcr1 mRNA Expression in Polymorphonuclear Neutrophils and CD4+ T Lymphocytes.&quot; <i>PLoS One</i> <b>10</b>(7):e0134365; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26230114 26230114]; doi: [https://dx.doi.org/10.1371/journal.pone.0134365 10.1371/journal.pone.0134365]; GPMDB: [http://gpmdb.org/data/keyword/26230114 12].
+
#Haurogné K, Pavlovic M, Rogniaux H, Bach JM, Lieubeau B,  (2015) &quot;Type 1 Diabetes Prone NOD Mice Have Diminished Cxcr1 mRNA Expression in Polymorphonuclear Neutrophils and CD4+ T Lymphocytes.&quot; <i>PLoS One</i> <b>10</b>(7):e0134365; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26230114 26230114]; doi: [https://dx.doi.org/10.1371/journal.pone.0134365 10.1371/journal.pone.0134365]; GPMDB: [http://gpmdb.org/data/keyword/26230114 12].
-
#Subasic D, Brümmer A, Wu Y, Pinto SM, Imig J, Keller M, Jovanovic M, Lightfoot HL, Nasso S, Goetze S, Brunner E, Hall J, Aebersold R, Zavolan M, Hengartner MO,  (2015) &quot;Cooperative target mRNA destabilization and translation inhibition by miR-58 microRNA family in C. elegans.&quot; <i>Genome Res</i> <b>25</b>(11):1680&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26232411 26232411]; doi: [https://dx.doi.org/10.1101/gr.183160.114 10.1101/gr.183160.114]; GPMDB: [http://gpmdb.org/data/keyword/26232411 52].
+
#Subasic D, Brümmer A, Wu Y, Pinto SM, Imig J, Keller M, Jovanovic M, Lightfoot HL, Nasso S, Goetze S, Brunner E, Hall J, Aebersold R, Zavolan M, Hengartner MO,  (2015) &quot;Cooperative target mRNA destabilization and translation inhibition by miR-58 microRNA family in C. elegans.&quot; <i>Genome Res</i> <b>25</b>(11):1680&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26232411 26232411]; doi: [https://dx.doi.org/10.1101/gr.183160.114 10.1101/gr.183160.114]; GPMDB: [http://gpmdb.org/data/keyword/26232411 52].
-
#Wiśniewski JR, Duś-Szachniewicz K, Ostasiewicz P, Ziółkowski P, Rakus D, Mann M,  (2015) &quot;Absolute Proteome Analysis of Colorectal Mucosa, Adenoma, and Cancer Reveals Drastic Changes in Fatty Acid Metabolism and Plasma Membrane Transporters.&quot; <i>J Proteome Res</i> <b>14</b>(9):4005&ndash;18; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26245529 26245529]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00523 10.1021/acs.jproteome.5b00523]; GPMDB: [http://gpmdb.org/data/keyword/26245529 184].
+
#WiÅ›niewski JR, DuÅ›-Szachniewicz K, Ostasiewicz P, Ziółkowski P, Rakus D, Mann M,  (2015) &quot;Absolute Proteome Analysis of Colorectal Mucosa, Adenoma, and Cancer Reveals Drastic Changes in Fatty Acid Metabolism and Plasma Membrane Transporters.&quot; <i>J Proteome Res</i> <b>14</b>(9):4005&ndash;18; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26245529 26245529]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00523 10.1021/acs.jproteome.5b00523]; GPMDB: [http://gpmdb.org/data/keyword/26245529 184].
#Hou J, Wang X, McShane E, Zauber H, Sun W, Selbach M, Chen W,  (2015) &quot;Extensive allele-specific translational regulation in hybrid mice.&quot; <i>Mol Syst Biol</i> <b>11</b>(8):825; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26253569 26253569]; GPMDB: [http://gpmdb.org/data/keyword/26253569 3].
#Hou J, Wang X, McShane E, Zauber H, Sun W, Selbach M, Chen W,  (2015) &quot;Extensive allele-specific translational regulation in hybrid mice.&quot; <i>Mol Syst Biol</i> <b>11</b>(8):825; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26253569 26253569]; GPMDB: [http://gpmdb.org/data/keyword/26253569 3].
#Shah P, Wang X, Yang W, Toghi Eshghi S, Sun S, Hoti N, Chen L, Yang S, Pasay J, Rubin A, Zhang H,  (2015) &quot;Integrated Proteomic and Glycoproteomic Analyses of Prostate Cancer Cells Reveal Glycoprotein Alteration in Protein Abundance and Glycosylation.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(10):2753&ndash;63; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26256267 26256267]; doi: [https://dx.doi.org/10.1074/mcp.M115.047928 10.1074/mcp.M115.047928]; GPMDB: [http://gpmdb.org/data/keyword/26256267 24].
#Shah P, Wang X, Yang W, Toghi Eshghi S, Sun S, Hoti N, Chen L, Yang S, Pasay J, Rubin A, Zhang H,  (2015) &quot;Integrated Proteomic and Glycoproteomic Analyses of Prostate Cancer Cells Reveal Glycoprotein Alteration in Protein Abundance and Glycosylation.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(10):2753&ndash;63; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26256267 26256267]; doi: [https://dx.doi.org/10.1074/mcp.M115.047928 10.1074/mcp.M115.047928]; GPMDB: [http://gpmdb.org/data/keyword/26256267 24].
-
#Toledo A, Pérez A, Coleman JL, Benach JL,  (2015) &quot;The lipid raft proteome of Borrelia burgdorferi.&quot; <i>Proteomics</i> <b>15</b>(21):3662&ndash;75; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26256460 26256460]; doi: [https://dx.doi.org/10.1002/pmic.201500093 10.1002/pmic.201500093]; GPMDB: [http://gpmdb.org/data/keyword/26256460 18].
+
#Toledo A, Pérez A, Coleman JL, Benach JL,  (2015) &quot;The lipid raft proteome of Borrelia burgdorferi.&quot; <i>Proteomics</i> <b>15</b>(21):3662&ndash;75; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26256460 26256460]; doi: [https://dx.doi.org/10.1002/pmic.201500093 10.1002/pmic.201500093]; GPMDB: [http://gpmdb.org/data/keyword/26256460 18].
#Kwon OK, Lee W, Kim SJ, Lee YM, Lee JY, Kim JY, Bae JS, Lee S,  (2015) &quot;In-depth proteomics approach of secretome to identify novel biomarker for sepsis in LPS-stimulated endothelial cells.&quot; <i>Electrophoresis</i> <b>36</b>(23):2851&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26257168 26257168]; doi: [https://dx.doi.org/10.1002/elps.201500198 10.1002/elps.201500198]; GPMDB: [http://gpmdb.org/data/keyword/26257168 4].
#Kwon OK, Lee W, Kim SJ, Lee YM, Lee JY, Kim JY, Bae JS, Lee S,  (2015) &quot;In-depth proteomics approach of secretome to identify novel biomarker for sepsis in LPS-stimulated endothelial cells.&quot; <i>Electrophoresis</i> <b>36</b>(23):2851&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26257168 26257168]; doi: [https://dx.doi.org/10.1002/elps.201500198 10.1002/elps.201500198]; GPMDB: [http://gpmdb.org/data/keyword/26257168 4].
#Chen L, Li J, Guo T, Ghosh S, Koh SK, Tian D, Zhang L, Jia D, Beuerman RW, Aebersold R, Chan EC, Zhou L,  (2015) &quot;Global Metabonomic and Proteomic Analysis of Human Conjunctival Epithelial Cells (IOBA-NHC) in Response to Hyperosmotic Stress.&quot; <i>J Proteome Res</i> <b>14</b>(9):3982&ndash;95; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26260330 26260330]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00443 10.1021/acs.jproteome.5b00443]; GPMDB: [http://gpmdb.org/data/keyword/26260330 3].
#Chen L, Li J, Guo T, Ghosh S, Koh SK, Tian D, Zhang L, Jia D, Beuerman RW, Aebersold R, Chan EC, Zhou L,  (2015) &quot;Global Metabonomic and Proteomic Analysis of Human Conjunctival Epithelial Cells (IOBA-NHC) in Response to Hyperosmotic Stress.&quot; <i>J Proteome Res</i> <b>14</b>(9):3982&ndash;95; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26260330 26260330]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00443 10.1021/acs.jproteome.5b00443]; GPMDB: [http://gpmdb.org/data/keyword/26260330 3].
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#Zhang Y, Li Q, Wu F, Zhou R, Qi Y, Su N, Chen L, Xu S, Jiang T, Zhang C, Cheng G, Chen X, Kong D, Wang Y, Zhang T, Zi J, Wei W, Gao Y, Zhen B, Xiong Z, Wu S, Yang P, Wang Q, Wen B, He F, Xu P, Liu S,  (2015) &quot;Tissue-Based Proteogenomics Reveals that Human Testis Endows Plentiful Missing Proteins.&quot; <i>J Proteome Res</i> <b>14</b>(9):3583&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26282447 26282447]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00435 10.1021/acs.jproteome.5b00435]; GPMDB: [http://gpmdb.org/data/keyword/26282447 150].
#Zhang Y, Li Q, Wu F, Zhou R, Qi Y, Su N, Chen L, Xu S, Jiang T, Zhang C, Cheng G, Chen X, Kong D, Wang Y, Zhang T, Zi J, Wei W, Gao Y, Zhen B, Xiong Z, Wu S, Yang P, Wang Q, Wen B, He F, Xu P, Liu S,  (2015) &quot;Tissue-Based Proteogenomics Reveals that Human Testis Endows Plentiful Missing Proteins.&quot; <i>J Proteome Res</i> <b>14</b>(9):3583&ndash;94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26282447 26282447]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00435 10.1021/acs.jproteome.5b00435]; GPMDB: [http://gpmdb.org/data/keyword/26282447 150].
#De Marchi T, Liu NQ, Stingl C, Timmermans MA, Smid M, Look MP, Tjoa M, Braakman RB, Opdam M, Linn SC, Sweep FC, Span PN, Kliffen M, Luider TM, Foekens JA, Martens JW, Umar A,  (2016) &quot;4-protein signature predicting tamoxifen treatment outcome in recurrent breast cancer.&quot; <i>Mol Oncol</i> <b>10</b>(1):24&ndash;39; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26285647 26285647]; doi: [https://dx.doi.org/10.1016/j.molonc.2015.07.004 10.1016/j.molonc.2015.07.004]; GPMDB: [http://gpmdb.org/data/keyword/26285647 112].
#De Marchi T, Liu NQ, Stingl C, Timmermans MA, Smid M, Look MP, Tjoa M, Braakman RB, Opdam M, Linn SC, Sweep FC, Span PN, Kliffen M, Luider TM, Foekens JA, Martens JW, Umar A,  (2016) &quot;4-protein signature predicting tamoxifen treatment outcome in recurrent breast cancer.&quot; <i>Mol Oncol</i> <b>10</b>(1):24&ndash;39; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26285647 26285647]; doi: [https://dx.doi.org/10.1016/j.molonc.2015.07.004 10.1016/j.molonc.2015.07.004]; GPMDB: [http://gpmdb.org/data/keyword/26285647 112].
-
#Haas S, Hansson J, Klimmeck D, Loeffler D, Velten L, Uckelmann H, Wurzer S, Prendergast ÁM, Schnell A, Hexel K, Santarella-Mellwig R, Blaszkiewicz S, Kuck A, Geiger H, Milsom MD, Steinmetz LM, Schroeder T, Trumpp A, Krijgsveld J, Essers MA,  (2015) &quot;Inflammation-Induced Emergency Megakaryopoiesis Driven by Hematopoietic Stem Cell-like Megakaryocyte Progenitors.&quot; <i>Cell Stem Cell</i> <b>17</b>(4):422&ndash;34; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26299573 26299573]; doi: [https://dx.doi.org/10.1016/j.stem.2015.07.007 10.1016/j.stem.2015.07.007]; GPMDB: [http://gpmdb.org/data/keyword/26299573 240].
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#Haas S, Hansson J, Klimmeck D, Loeffler D, Velten L, Uckelmann H, Wurzer S, Prendergast ÁM, Schnell A, Hexel K, Santarella-Mellwig R, Blaszkiewicz S, Kuck A, Geiger H, Milsom MD, Steinmetz LM, Schroeder T, Trumpp A, Krijgsveld J, Essers MA,  (2015) &quot;Inflammation-Induced Emergency Megakaryopoiesis Driven by Hematopoietic Stem Cell-like Megakaryocyte Progenitors.&quot; <i>Cell Stem Cell</i> <b>17</b>(4):422&ndash;34; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26299573 26299573]; doi: [https://dx.doi.org/10.1016/j.stem.2015.07.007 10.1016/j.stem.2015.07.007]; GPMDB: [http://gpmdb.org/data/keyword/26299573 240].
#Titz B, Sewer A, Schneider T, Elamin A, Martin F, Dijon S, Luettich K, Guedj E, Vuillaume G, Ivanov NV, Peck MJ, Chaudhary NI, Hoeng J, Peitsch MC,  (2015) &quot;Alterations in the sputum proteome and transcriptome in smokers and early-stage COPD subjects.&quot; <i>J Proteomics</i> <b>128</b>:306&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26306861 26306861]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.08.009 10.1016/j.jprot.2015.08.009]; GPMDB: [http://gpmdb.org/data/keyword/26306861 120].
#Titz B, Sewer A, Schneider T, Elamin A, Martin F, Dijon S, Luettich K, Guedj E, Vuillaume G, Ivanov NV, Peck MJ, Chaudhary NI, Hoeng J, Peitsch MC,  (2015) &quot;Alterations in the sputum proteome and transcriptome in smokers and early-stage COPD subjects.&quot; <i>J Proteomics</i> <b>128</b>:306&ndash;20; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26306861 26306861]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.08.009 10.1016/j.jprot.2015.08.009]; GPMDB: [http://gpmdb.org/data/keyword/26306861 120].
#Yang CR, Raghuram V, Emamian M, Sandoval PC, Knepper MA,  (2015) &quot;Deep proteomic profiling of vasopressin-sensitive collecting duct cells. II. Bioinformatic analysis of vasopressin signaling.&quot; <i>Am J Physiol Cell Physiol</i> <b>309</b>(12):C799&ndash;812; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26310817 26310817]; doi: [https://dx.doi.org/10.1152/ajpcell.00214.2015 10.1152/ajpcell.00214.2015]; GPMDB: [http://gpmdb.org/data/keyword/26310817 257].
#Yang CR, Raghuram V, Emamian M, Sandoval PC, Knepper MA,  (2015) &quot;Deep proteomic profiling of vasopressin-sensitive collecting duct cells. II. Bioinformatic analysis of vasopressin signaling.&quot; <i>Am J Physiol Cell Physiol</i> <b>309</b>(12):C799&ndash;812; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26310817 26310817]; doi: [https://dx.doi.org/10.1152/ajpcell.00214.2015 10.1152/ajpcell.00214.2015]; GPMDB: [http://gpmdb.org/data/keyword/26310817 257].
#Deeb SJ, Tyanova S, Hummel M, Schmidt-Supprian M, Cox J, Mann M,  (2015) &quot;Machine Learning-based Classification of Diffuse Large B-cell Lymphoma Patients by Their Protein Expression Profiles.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(11):2947&ndash;60; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26311899 26311899]; doi: [https://dx.doi.org/10.1074/mcp.M115.050245 10.1074/mcp.M115.050245]; GPMDB: [http://gpmdb.org/data/keyword/26311899 20].
#Deeb SJ, Tyanova S, Hummel M, Schmidt-Supprian M, Cox J, Mann M,  (2015) &quot;Machine Learning-based Classification of Diffuse Large B-cell Lymphoma Patients by Their Protein Expression Profiles.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(11):2947&ndash;60; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26311899 26311899]; doi: [https://dx.doi.org/10.1074/mcp.M115.050245 10.1074/mcp.M115.050245]; GPMDB: [http://gpmdb.org/data/keyword/26311899 20].
#Benoit I, Zhou M, Vivas Duarte A, Downes DJ, Todd RB, Kloezen W, Post H, Heck AJ, Maarten Altelaar AF, de Vries RP,  (2015) &quot;Spatial differentiation of gene expression in Aspergillus niger colony grown for sugar beet pulp utilization.&quot; <i>Sci Rep</i> <b>5</b>:13592; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26314379 26314379]; doi: [https://dx.doi.org/10.1038/srep13592 10.1038/srep13592]; GPMDB: [http://gpmdb.org/data/keyword/26314379 10].
#Benoit I, Zhou M, Vivas Duarte A, Downes DJ, Todd RB, Kloezen W, Post H, Heck AJ, Maarten Altelaar AF, de Vries RP,  (2015) &quot;Spatial differentiation of gene expression in Aspergillus niger colony grown for sugar beet pulp utilization.&quot; <i>Sci Rep</i> <b>5</b>:13592; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26314379 26314379]; doi: [https://dx.doi.org/10.1038/srep13592 10.1038/srep13592]; GPMDB: [http://gpmdb.org/data/keyword/26314379 10].
-
#Shrivastava AN, Redeker V, Fritz N, Pieri L, Almeida LG, Spolidoro M, Liebmann T, Bousset L, Renner M, Léna C, Aperia A, Melki R, Triller A,  (2015) &quot;α-synuclein assemblies sequester neuronal α3-Na+/K+-ATPase and impair Na+ gradient.&quot; <i>EMBO J</i> <b>34</b>(19):2408&ndash;23; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26323479 26323479]; doi: [https://dx.doi.org/10.15252/embj.201591397 10.15252/embj.201591397]; GPMDB: [http://gpmdb.org/data/keyword/26323479 23].
+
#Shrivastava AN, Redeker V, Fritz N, Pieri L, Almeida LG, Spolidoro M, Liebmann T, Bousset L, Renner M, Léna C, Aperia A, Melki R, Triller A,  (2015) &quot;α-synuclein assemblies sequester neuronal α3-Na+/K+-ATPase and impair Na+ gradient.&quot; <i>EMBO J</i> <b>34</b>(19):2408&ndash;23; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26323479 26323479]; doi: [https://dx.doi.org/10.15252/embj.201591397 10.15252/embj.201591397]; GPMDB: [http://gpmdb.org/data/keyword/26323479 23].
#Chu XL, Feng MG, Ying SH,  (2016) &quot;Qualitative ubiquitome unveils the potential significances of protein lysine ubiquitination in hyphal growth of Aspergillus nidulans.&quot; <i>Curr Genet</i> <b>62</b>(1):191&ndash;201; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26328806 26328806]; doi: [https://dx.doi.org/10.1007/s00294-015-0517-7 10.1007/s00294-015-0517-7]; GPMDB: [http://gpmdb.org/data/keyword/26328806 1].
#Chu XL, Feng MG, Ying SH,  (2016) &quot;Qualitative ubiquitome unveils the potential significances of protein lysine ubiquitination in hyphal growth of Aspergillus nidulans.&quot; <i>Curr Genet</i> <b>62</b>(1):191&ndash;201; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26328806 26328806]; doi: [https://dx.doi.org/10.1007/s00294-015-0517-7 10.1007/s00294-015-0517-7]; GPMDB: [http://gpmdb.org/data/keyword/26328806 1].
#Duhamel M, Rodet F, Delhem N, Vanden Abeele F, Kobeissy F, Nataf S, Pays L, Desjardins R, Gagnon H, Wisztorski M, Fournier I, Day R, Salzet M,  (2015) &quot;Molecular Consequences of Proprotein Convertase 1/3 (PC1/3) Inhibition in Macrophages for Application to Cancer Immunotherapy: A Proteomic Study.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(11):2857&ndash;77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26330543 26330543]; doi: [https://dx.doi.org/10.1074/mcp.M115.052480 10.1074/mcp.M115.052480]; GPMDB: [http://gpmdb.org/data/keyword/26330543 18].
#Duhamel M, Rodet F, Delhem N, Vanden Abeele F, Kobeissy F, Nataf S, Pays L, Desjardins R, Gagnon H, Wisztorski M, Fournier I, Day R, Salzet M,  (2015) &quot;Molecular Consequences of Proprotein Convertase 1/3 (PC1/3) Inhibition in Macrophages for Application to Cancer Immunotherapy: A Proteomic Study.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(11):2857&ndash;77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26330543 26330543]; doi: [https://dx.doi.org/10.1074/mcp.M115.052480 10.1074/mcp.M115.052480]; GPMDB: [http://gpmdb.org/data/keyword/26330543 18].
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#Lin MH, Sugiyama N, Ishihama Y,  (2015) &quot;Systematic profiling of the bacterial phosphoproteome reveals bacterium-specific features of phosphorylation.&quot; <i>Sci Signal</i> <b>8</b>(394):rs10; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26373674 26373674]; doi: [https://dx.doi.org/10.1126/scisignal.aaa3117 10.1126/scisignal.aaa3117]; GPMDB: [http://gpmdb.org/data/keyword/26373674 73].
#Lin MH, Sugiyama N, Ishihama Y,  (2015) &quot;Systematic profiling of the bacterial phosphoproteome reveals bacterium-specific features of phosphorylation.&quot; <i>Sci Signal</i> <b>8</b>(394):rs10; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26373674 26373674]; doi: [https://dx.doi.org/10.1126/scisignal.aaa3117 10.1126/scisignal.aaa3117]; GPMDB: [http://gpmdb.org/data/keyword/26373674 73].
#Park AJ, Murphy K, Surette MD, Bandoro C, Krieger JR, Taylor P, Khursigara CM,  (2015) &quot;Tracking the Dynamic Relationship between Cellular Systems and Extracellular Subproteomes in Pseudomonas aeruginosa Biofilms.&quot; <i>J Proteome Res</i> <b>14</b>(11):4524&ndash;37; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26378716 26378716]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00262 10.1021/acs.jproteome.5b00262]; GPMDB: [http://gpmdb.org/data/keyword/26378716 34].
#Park AJ, Murphy K, Surette MD, Bandoro C, Krieger JR, Taylor P, Khursigara CM,  (2015) &quot;Tracking the Dynamic Relationship between Cellular Systems and Extracellular Subproteomes in Pseudomonas aeruginosa Biofilms.&quot; <i>J Proteome Res</i> <b>14</b>(11):4524&ndash;37; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26378716 26378716]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00262 10.1021/acs.jproteome.5b00262]; GPMDB: [http://gpmdb.org/data/keyword/26378716 34].
-
#Ruprecht B, Zecha J, Heinzlmeir S, Médard G, Lemeer S, Kuster B,  (2015) &quot;Evaluation of Kinase Activity Profiling Using Chemical Proteomics.&quot; <i>ACS Chem Biol</i> <b>10</b>(12):2743&ndash;52; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26378887 26378887]; doi: [https://dx.doi.org/10.1021/acschembio.5b00616 10.1021/acschembio.5b00616]; GPMDB: [http://gpmdb.org/data/keyword/26378887 94].
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#Ruprecht B, Zecha J, Heinzlmeir S, Médard G, Lemeer S, Kuster B,  (2015) &quot;Evaluation of Kinase Activity Profiling Using Chemical Proteomics.&quot; <i>ACS Chem Biol</i> <b>10</b>(12):2743&ndash;52; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26378887 26378887]; doi: [https://dx.doi.org/10.1021/acschembio.5b00616 10.1021/acschembio.5b00616]; GPMDB: [http://gpmdb.org/data/keyword/26378887 94].
#Clark DJ, Fondrie WE, Liao Z, Hanson PI, Fulton A, Mao L, Yang AJ,  (2015) &quot;Redefining the Breast Cancer Exosome Proteome by Tandem Mass Tag Quantitative Proteomics and Multivariate Cluster Analysis.&quot; <i>Anal Chem</i> <b>87</b>(20):10462&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26378940 26378940]; doi: [https://dx.doi.org/10.1021/acs.analchem.5b02586 10.1021/acs.analchem.5b02586]; GPMDB: [http://gpmdb.org/data/keyword/26378940 2].
#Clark DJ, Fondrie WE, Liao Z, Hanson PI, Fulton A, Mao L, Yang AJ,  (2015) &quot;Redefining the Breast Cancer Exosome Proteome by Tandem Mass Tag Quantitative Proteomics and Multivariate Cluster Analysis.&quot; <i>Anal Chem</i> <b>87</b>(20):10462&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26378940 26378940]; doi: [https://dx.doi.org/10.1021/acs.analchem.5b02586 10.1021/acs.analchem.5b02586]; GPMDB: [http://gpmdb.org/data/keyword/26378940 2].
-
#Kieselbach T, Zijnge V, Granström E, Oscarsson J,  (2015) &quot;Proteomics of Aggregatibacter actinomycetemcomitans Outer Membrane Vesicles.&quot; <i>PLoS One</i> <b>10</b>(9):e0138591; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26381655 26381655]; doi: [https://dx.doi.org/10.1371/journal.pone.0138591 10.1371/journal.pone.0138591]; GPMDB: [http://gpmdb.org/data/keyword/26381655 5].
+
#Kieselbach T, Zijnge V, Granström E, Oscarsson J,  (2015) &quot;Proteomics of Aggregatibacter actinomycetemcomitans Outer Membrane Vesicles.&quot; <i>PLoS One</i> <b>10</b>(9):e0138591; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26381655 26381655]; doi: [https://dx.doi.org/10.1371/journal.pone.0138591 10.1371/journal.pone.0138591]; GPMDB: [http://gpmdb.org/data/keyword/26381655 5].
#Liu T, Tian CF, Chen WX,  (2015) &quot;Site-Specific Ser/Thr/Tyr Phosphoproteome of Sinorhizobium meliloti at Stationary Phase.&quot; <i>PLoS One</i> <b>10</b>(9):e0139143; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26401955 26401955]; doi: [https://dx.doi.org/10.1371/journal.pone.0139143 10.1371/journal.pone.0139143]; GPMDB: [http://gpmdb.org/data/keyword/26401955 2].
#Liu T, Tian CF, Chen WX,  (2015) &quot;Site-Specific Ser/Thr/Tyr Phosphoproteome of Sinorhizobium meliloti at Stationary Phase.&quot; <i>PLoS One</i> <b>10</b>(9):e0139143; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26401955 26401955]; doi: [https://dx.doi.org/10.1371/journal.pone.0139143 10.1371/journal.pone.0139143]; GPMDB: [http://gpmdb.org/data/keyword/26401955 2].
#Li S, Dislich B, Brakebusch CH, Lichtenthaler SF, Brocker T,  (2015) &quot;Control of Homeostasis and Dendritic Cell Survival by the GTPase RhoA.&quot; <i>J Immunol</i> <b>195</b>(9):4244&ndash;56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26408665 26408665]; doi: [https://dx.doi.org/10.4049/jimmunol.1500676 10.4049/jimmunol.1500676]; GPMDB: [http://gpmdb.org/data/keyword/26408665 60].
#Li S, Dislich B, Brakebusch CH, Lichtenthaler SF, Brocker T,  (2015) &quot;Control of Homeostasis and Dendritic Cell Survival by the GTPase RhoA.&quot; <i>J Immunol</i> <b>195</b>(9):4244&ndash;56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26408665 26408665]; doi: [https://dx.doi.org/10.4049/jimmunol.1500676 10.4049/jimmunol.1500676]; GPMDB: [http://gpmdb.org/data/keyword/26408665 60].
-
#Glatter T, Ahrné E, Schmidt A,  (2015) &quot;Comparison of Different Sample Preparation Protocols Reveals Lysis Buffer-Specific Extraction Biases in Gram-Negative Bacteria and Human Cells.&quot; <i>J Proteome Res</i> <b>14</b>(11):4472&ndash;85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26412744 26412744]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00654 10.1021/acs.jproteome.5b00654]; GPMDB: [http://gpmdb.org/data/keyword/26412744 493].
+
#Glatter T, Ahrné E, Schmidt A,  (2015) &quot;Comparison of Different Sample Preparation Protocols Reveals Lysis Buffer-Specific Extraction Biases in Gram-Negative Bacteria and Human Cells.&quot; <i>J Proteome Res</i> <b>14</b>(11):4472&ndash;85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26412744 26412744]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00654 10.1021/acs.jproteome.5b00654]; GPMDB: [http://gpmdb.org/data/keyword/26412744 496].
#Hadley KC, Rakhit R, Guo H, Sun Y, Jonkman JE, McLaurin J, Hazrati LN, Emili A, Chakrabartty A,  (2015) &quot;Determining composition of micron-scale protein deposits in neurodegenerative disease by spatially targeted optical microproteomics.&quot; <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26418743 26418743]; doi: [https://dx.doi.org/10.7554/eLife.09579 10.7554/eLife.09579]; GPMDB: [http://gpmdb.org/data/keyword/26418743 12].
#Hadley KC, Rakhit R, Guo H, Sun Y, Jonkman JE, McLaurin J, Hazrati LN, Emili A, Chakrabartty A,  (2015) &quot;Determining composition of micron-scale protein deposits in neurodegenerative disease by spatially targeted optical microproteomics.&quot; <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26418743 26418743]; doi: [https://dx.doi.org/10.7554/eLife.09579 10.7554/eLife.09579]; GPMDB: [http://gpmdb.org/data/keyword/26418743 12].
#Gallart-Palau X, Serra A, Wong AS, Sandin S, Lai MK, Chen CP, Kon OL, Sze SK,  (2015) &quot;Extracellular vesicles are rapidly purified from human plasma by PRotein Organic Solvent PRecipitation (PROSPR).&quot; <i>Sci Rep</i> <b>5</b>:14664; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26419333 26419333]; doi: [https://dx.doi.org/10.1038/srep14664 10.1038/srep14664]; GPMDB: [http://gpmdb.org/data/keyword/26419333 172].
#Gallart-Palau X, Serra A, Wong AS, Sandin S, Lai MK, Chen CP, Kon OL, Sze SK,  (2015) &quot;Extracellular vesicles are rapidly purified from human plasma by PRotein Organic Solvent PRecipitation (PROSPR).&quot; <i>Sci Rep</i> <b>5</b>:14664; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26419333 26419333]; doi: [https://dx.doi.org/10.1038/srep14664 10.1038/srep14664]; GPMDB: [http://gpmdb.org/data/keyword/26419333 172].
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#Alanko J, Mai A, Jacquemet G, Schauer K, Kaukonen R, Saari M, Goud B, Ivaska J,  (2015) &quot;Integrin endosomal signalling suppresses anoikis.&quot; <i>Nat Cell Biol</i> <b>17</b>(11):1412&ndash;21; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26436690 26436690]; doi: [https://dx.doi.org/10.1038/ncb3250 10.1038/ncb3250]; GPMDB: [http://gpmdb.org/data/keyword/26436690 60].
#Alanko J, Mai A, Jacquemet G, Schauer K, Kaukonen R, Saari M, Goud B, Ivaska J,  (2015) &quot;Integrin endosomal signalling suppresses anoikis.&quot; <i>Nat Cell Biol</i> <b>17</b>(11):1412&ndash;21; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26436690 26436690]; doi: [https://dx.doi.org/10.1038/ncb3250 10.1038/ncb3250]; GPMDB: [http://gpmdb.org/data/keyword/26436690 60].
#Matheson NJ, Sumner J, Wals K, Rapiteanu R, Weekes MP, Vigan R, Weinelt J, Schindler M, Antrobus R, Costa AS, Frezza C, Clish CB, Neil SJ, Lehner PJ,  (2015) &quot;Cell Surface Proteomic Map of HIV Infection Reveals Antagonism of Amino Acid Metabolism by Vpu and Nef.&quot; <i>Cell Host Microbe</i> <b>18</b>(4):409&ndash;23; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26439863 26439863]; doi: [https://dx.doi.org/10.1016/j.chom.2015.09.003 10.1016/j.chom.2015.09.003]; GPMDB: [http://gpmdb.org/data/keyword/26439863 10].
#Matheson NJ, Sumner J, Wals K, Rapiteanu R, Weekes MP, Vigan R, Weinelt J, Schindler M, Antrobus R, Costa AS, Frezza C, Clish CB, Neil SJ, Lehner PJ,  (2015) &quot;Cell Surface Proteomic Map of HIV Infection Reveals Antagonism of Amino Acid Metabolism by Vpu and Nef.&quot; <i>Cell Host Microbe</i> <b>18</b>(4):409&ndash;23; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26439863 26439863]; doi: [https://dx.doi.org/10.1016/j.chom.2015.09.003 10.1016/j.chom.2015.09.003]; GPMDB: [http://gpmdb.org/data/keyword/26439863 10].
-
#Zhang H, Ramakrishnan SK, Triner D, Centofanti B, Maitra D, Győrffy B, Sebolt-Leopold JS, Dame MK, Varani J, Brenner DE, Fearon ER, Omary MB, Shah YM,  (2015) &quot;Tumor-selective proteotoxicity of verteporfin inhibits colon cancer progression independently of YAP1.&quot; <i>Sci Signal</i> <b>8</b>(397):ra98; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26443705 26443705]; doi: [https://dx.doi.org/10.1126/scisignal.aac5418 10.1126/scisignal.aac5418]; GPMDB: [http://gpmdb.org/data/keyword/26443705 2].
+
#Zhang H, Ramakrishnan SK, Triner D, Centofanti B, Maitra D, GyÅ‘rffy B, Sebolt-Leopold JS, Dame MK, Varani J, Brenner DE, Fearon ER, Omary MB, Shah YM,  (2015) &quot;Tumor-selective proteotoxicity of verteporfin inhibits colon cancer progression independently of YAP1.&quot; <i>Sci Signal</i> <b>8</b>(397):ra98; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26443705 26443705]; doi: [https://dx.doi.org/10.1126/scisignal.aac5418 10.1126/scisignal.aac5418]; GPMDB: [http://gpmdb.org/data/keyword/26443705 2].
#Kwon OK, Kim SJ, Lee YM, Lee YH, Bae YS, Kim JY, Peng X, Cheng Z, Zhao Y, Lee S,  (2016) &quot;Global analysis of phosphoproteome dynamics in embryonic development of zebrafish (Danio rerio).&quot; <i>Proteomics</i> <b>16</b>(1):136&ndash;49; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26449285 26449285]; doi: [https://dx.doi.org/10.1002/pmic.201500017 10.1002/pmic.201500017]; GPMDB: [http://gpmdb.org/data/keyword/26449285 32].
#Kwon OK, Kim SJ, Lee YM, Lee YH, Bae YS, Kim JY, Peng X, Cheng Z, Zhao Y, Lee S,  (2016) &quot;Global analysis of phosphoproteome dynamics in embryonic development of zebrafish (Danio rerio).&quot; <i>Proteomics</i> <b>16</b>(1):136&ndash;49; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26449285 26449285]; doi: [https://dx.doi.org/10.1002/pmic.201500017 10.1002/pmic.201500017]; GPMDB: [http://gpmdb.org/data/keyword/26449285 32].
#Geddes JM, Croll D, Caza M, Stoynov N, Foster LJ, Kronstad JW,  (2015) &quot;Secretome profiling of Cryptococcus neoformans reveals regulation of a subset of virulence-associated proteins and potential biomarkers by protein kinase A.&quot; <i>BMC Microbiol</i> <b>15</b>(1):206; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26453029 26453029]; doi: [https://dx.doi.org/10.1186/s12866-015-0532-3 10.1186/s12866-015-0532-3]; GPMDB: [http://gpmdb.org/data/keyword/26453029 48].
#Geddes JM, Croll D, Caza M, Stoynov N, Foster LJ, Kronstad JW,  (2015) &quot;Secretome profiling of Cryptococcus neoformans reveals regulation of a subset of virulence-associated proteins and potential biomarkers by protein kinase A.&quot; <i>BMC Microbiol</i> <b>15</b>(1):206; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26453029 26453029]; doi: [https://dx.doi.org/10.1186/s12866-015-0532-3 10.1186/s12866-015-0532-3]; GPMDB: [http://gpmdb.org/data/keyword/26453029 48].
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#Gomez-Auli A, Hillebrand LE, Biniossek ML, Peters C, Reinheckel T, Schilling O,  (2016) &quot;Impact of cathepsin B on the interstitial fluid proteome of murine breast cancers.&quot; <i>Biochimie</i> <b>122</b>:88&ndash;98; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26455267 26455267]; doi: [https://dx.doi.org/10.1016/j.biochi.2015.10.009 10.1016/j.biochi.2015.10.009]; GPMDB: [http://gpmdb.org/data/keyword/26455267 1].
#Poli M, Ori A, Child T, Jaroudi S, Spath K, Beck M, Wells D,  (2015) &quot;Characterization and quantification of proteins secreted by single human embryos prior to implantation.&quot; <i>EMBO Mol Med</i> <b>7</b>(11):1465&ndash;79; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26471863 26471863]; doi: [https://dx.doi.org/10.15252/emmm.201505344 10.15252/emmm.201505344]; GPMDB: [http://gpmdb.org/data/keyword/26471863 11].
#Poli M, Ori A, Child T, Jaroudi S, Spath K, Beck M, Wells D,  (2015) &quot;Characterization and quantification of proteins secreted by single human embryos prior to implantation.&quot; <i>EMBO Mol Med</i> <b>7</b>(11):1465&ndash;79; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26471863 26471863]; doi: [https://dx.doi.org/10.15252/emmm.201505344 10.15252/emmm.201505344]; GPMDB: [http://gpmdb.org/data/keyword/26471863 11].
#Schlage P, Kockmann T, Sabino F, Kizhakkedathu JN, Auf dem Keller U,  (2015) &quot;Matrix Metalloproteinase 10 Degradomics in Keratinocytes and Epidermal Tissue Identifies Bioactive Substrates With Pleiotropic Functions.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(12):3234&ndash;46; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26475864 26475864]; doi: [https://dx.doi.org/10.1074/mcp.M115.053520 10.1074/mcp.M115.053520]; GPMDB: [http://gpmdb.org/data/keyword/26475864 25].
#Schlage P, Kockmann T, Sabino F, Kizhakkedathu JN, Auf dem Keller U,  (2015) &quot;Matrix Metalloproteinase 10 Degradomics in Keratinocytes and Epidermal Tissue Identifies Bioactive Substrates With Pleiotropic Functions.&quot; <i>Mol Cell Proteomics</i> <b>14</b>(12):3234&ndash;46; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26475864 26475864]; doi: [https://dx.doi.org/10.1074/mcp.M115.053520 10.1074/mcp.M115.053520]; GPMDB: [http://gpmdb.org/data/keyword/26475864 25].
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#Parker BL, Thaysen-Andersen M, Fazakerley DJ, Holliday M, Packer NH, James DE,  (2016) &quot;Terminal Galactosylation and Sialylation Switching on Membrane Glycoproteins upon TNF-Alpha-Induced Insulin Resistance in Adipocytes.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(1):141&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26537798 26537798]; doi: [https://dx.doi.org/10.1074/mcp.M115.054221 10.1074/mcp.M115.054221]; GPMDB: [http://gpmdb.org/data/keyword/26537798 39].
#Parker BL, Thaysen-Andersen M, Fazakerley DJ, Holliday M, Packer NH, James DE,  (2016) &quot;Terminal Galactosylation and Sialylation Switching on Membrane Glycoproteins upon TNF-Alpha-Induced Insulin Resistance in Adipocytes.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(1):141&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26537798 26537798]; doi: [https://dx.doi.org/10.1074/mcp.M115.054221 10.1074/mcp.M115.054221]; GPMDB: [http://gpmdb.org/data/keyword/26537798 39].
#Elkon R, Loayza-Puch F, Korkmaz G, Lopes R, van Breugel PC, Bleijerveld OB, Altelaar AF, Wolf E, Lorenzin F, Eilers M, Agami R,  (2015) &quot;Myc coordinates transcription and translation to enhance transformation and suppress invasiveness.&quot; <i>EMBO Rep</i> <b>16</b>(12):1723&ndash;36; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26538417 26538417]; doi: [https://dx.doi.org/10.15252/embr.201540717 10.15252/embr.201540717]; GPMDB: [http://gpmdb.org/data/keyword/26538417 3].
#Elkon R, Loayza-Puch F, Korkmaz G, Lopes R, van Breugel PC, Bleijerveld OB, Altelaar AF, Wolf E, Lorenzin F, Eilers M, Agami R,  (2015) &quot;Myc coordinates transcription and translation to enhance transformation and suppress invasiveness.&quot; <i>EMBO Rep</i> <b>16</b>(12):1723&ndash;36; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26538417 26538417]; doi: [https://dx.doi.org/10.15252/embr.201540717 10.15252/embr.201540717]; GPMDB: [http://gpmdb.org/data/keyword/26538417 3].
-
#Stewart PA, Parapatics K, Welsh EA, Müller AC, Cao H, Fang B, Koomen JM, Eschrich SA, Bennett KL, Haura EB,  (2015) &quot;A Pilot Proteogenomic Study with Data Integration Identifies MCT1 and GLUT1 as Prognostic Markers in Lung Adenocarcinoma.&quot; <i>PLoS One</i> <b>10</b>(11):e0142162; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26539827 26539827]; doi: [https://dx.doi.org/10.1371/journal.pone.0142162 10.1371/journal.pone.0142162]; GPMDB: [http://gpmdb.org/data/keyword/26539827 50].
+
#Stewart PA, Parapatics K, Welsh EA, Müller AC, Cao H, Fang B, Koomen JM, Eschrich SA, Bennett KL, Haura EB,  (2015) &quot;A Pilot Proteogenomic Study with Data Integration Identifies MCT1 and GLUT1 as Prognostic Markers in Lung Adenocarcinoma.&quot; <i>PLoS One</i> <b>10</b>(11):e0142162; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26539827 26539827]; doi: [https://dx.doi.org/10.1371/journal.pone.0142162 10.1371/journal.pone.0142162]; GPMDB: [http://gpmdb.org/data/keyword/26539827 50].
-
#Mitchell CJ, Getnet D, Kim MS, Manda SS, Kumar P, Huang TC, Pinto SM, Nirujogi RS, Iwasaki M, Shaw PG, Wu X, Zhong J, Chaerkady R, Marimuthu A, Muthusamy B, Sahasrabuddhe NA, Raju R, Bowman C, Danilova L, Cutler J, Kelkar DS, Drake CG, Prasad TS, Marchionni L, Murakami PN, Scott AF, Shi L, Thierry-Mieg J, Thierry-Mieg D, Irizarry R, Cope L, Ishihama Y, Wang C, Gowda H, Pandey A,  (2015) &quot;A multi-omic analysis of human naïve CD4+ T cells.&quot; <i>BMC Syst Biol</i> <b>9</b>:75; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26542228 26542228]; doi: [https://dx.doi.org/10.1186/s12918-015-0225-4 10.1186/s12918-015-0225-4]; GPMDB: [http://gpmdb.org/data/keyword/26542228 14].
+
#Mitchell CJ, Getnet D, Kim MS, Manda SS, Kumar P, Huang TC, Pinto SM, Nirujogi RS, Iwasaki M, Shaw PG, Wu X, Zhong J, Chaerkady R, Marimuthu A, Muthusamy B, Sahasrabuddhe NA, Raju R, Bowman C, Danilova L, Cutler J, Kelkar DS, Drake CG, Prasad TS, Marchionni L, Murakami PN, Scott AF, Shi L, Thierry-Mieg J, Thierry-Mieg D, Irizarry R, Cope L, Ishihama Y, Wang C, Gowda H, Pandey A,  (2015) &quot;A multi-omic analysis of human naïve CD4+ T cells.&quot; <i>BMC Syst Biol</i> <b>9</b>:75; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26542228 26542228]; doi: [https://dx.doi.org/10.1186/s12918-015-0225-4 10.1186/s12918-015-0225-4]; GPMDB: [http://gpmdb.org/data/keyword/26542228 14].
#Aurass P, Gerlach T, Becher D, Voigt B, Karste S, Bernhardt J, Riedel K, Hecker M, Flieger A,  (2016) &quot;Life Stage-specific Proteomes of Legionella pneumophila Reveal a Highly Differential Abundance of Virulence-associated Dot/Icm effectors.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(1):177&ndash;200; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26545400 26545400]; doi: [https://dx.doi.org/10.1074/mcp.M115.053579 10.1074/mcp.M115.053579]; GPMDB: [http://gpmdb.org/data/keyword/26545400 209].
#Aurass P, Gerlach T, Becher D, Voigt B, Karste S, Bernhardt J, Riedel K, Hecker M, Flieger A,  (2016) &quot;Life Stage-specific Proteomes of Legionella pneumophila Reveal a Highly Differential Abundance of Virulence-associated Dot/Icm effectors.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(1):177&ndash;200; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26545400 26545400]; doi: [https://dx.doi.org/10.1074/mcp.M115.053579 10.1074/mcp.M115.053579]; GPMDB: [http://gpmdb.org/data/keyword/26545400 209].
#Bensaddek D, Narayan V, Nicolas A, Brenes Murillo A, Gartner A, Kenyon CJ, Lamond AI,  (2016) &quot;Micro-proteomics with iterative data analysis: Proteome analysis in C. elegans at the single worm level.&quot; <i>Proteomics</i> <b>16</b>(3):381&ndash;92; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26552604 26552604]; doi: [https://dx.doi.org/10.1002/pmic.201500264 10.1002/pmic.201500264]; GPMDB: [http://gpmdb.org/data/keyword/26552604 40].
#Bensaddek D, Narayan V, Nicolas A, Brenes Murillo A, Gartner A, Kenyon CJ, Lamond AI,  (2016) &quot;Micro-proteomics with iterative data analysis: Proteome analysis in C. elegans at the single worm level.&quot; <i>Proteomics</i> <b>16</b>(3):381&ndash;92; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26552604 26552604]; doi: [https://dx.doi.org/10.1002/pmic.201500264 10.1002/pmic.201500264]; GPMDB: [http://gpmdb.org/data/keyword/26552604 40].
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#Kito K, Ito H, Nohara T, Ohnishi M, Ishibashi Y, Takeda D,  (2016) &quot;Yeast Interspecies Comparative Proteomics Reveals Divergence in Expression Profiles and Provides Insights into Proteome Resource Allocation and Evolutionary Roles of Gene Duplication.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(1):218&ndash;35; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26560065 26560065]; doi: [https://dx.doi.org/10.1074/mcp.M115.051854 10.1074/mcp.M115.051854]; GPMDB: [http://gpmdb.org/data/keyword/26560065 150].
#Kito K, Ito H, Nohara T, Ohnishi M, Ishibashi Y, Takeda D,  (2016) &quot;Yeast Interspecies Comparative Proteomics Reveals Divergence in Expression Profiles and Provides Insights into Proteome Resource Allocation and Evolutionary Roles of Gene Duplication.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(1):218&ndash;35; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26560065 26560065]; doi: [https://dx.doi.org/10.1074/mcp.M115.051854 10.1074/mcp.M115.051854]; GPMDB: [http://gpmdb.org/data/keyword/26560065 150].
#Zhao Y, Valbuena G, Walker DH, Gazi M, Hidalgo M, DeSousa R, Oteo JA, Goez Y, Brasier AR,  (2016) &quot;Endothelial Cell Proteomic Response to Rickettsia conorii Infection Reveals Activation of the Janus Kinase (JAK)-Signal Transducer and Activator of Transcription (STAT)-Inferferon Stimulated Gene (ISG)15 Pathway and Reprogramming Plasma Membrane Integrin/Cadherin Signaling.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(1):289&ndash;304; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26560068 26560068]; doi: [https://dx.doi.org/10.1074/mcp.M115.054361 10.1074/mcp.M115.054361]; GPMDB: [http://gpmdb.org/data/keyword/26560068 7].
#Zhao Y, Valbuena G, Walker DH, Gazi M, Hidalgo M, DeSousa R, Oteo JA, Goez Y, Brasier AR,  (2016) &quot;Endothelial Cell Proteomic Response to Rickettsia conorii Infection Reveals Activation of the Janus Kinase (JAK)-Signal Transducer and Activator of Transcription (STAT)-Inferferon Stimulated Gene (ISG)15 Pathway and Reprogramming Plasma Membrane Integrin/Cadherin Signaling.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(1):289&ndash;304; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26560068 26560068]; doi: [https://dx.doi.org/10.1074/mcp.M115.054361 10.1074/mcp.M115.054361]; GPMDB: [http://gpmdb.org/data/keyword/26560068 7].
-
#Sun S, Shah P, Eshghi ST, Yang W, Trikannad N, Yang S, Chen L, Aiyetan P, Höti N, Zhang Z, Chan DW, Zhang H,  (2016) &quot;Comprehensive analysis of protein glycosylation by solid-phase extraction of N-linked glycans and glycosite-containing peptides.&quot; <i>Nat Biotechnol</i> <b>34</b>(1):84&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26571101 26571101]; doi: [https://dx.doi.org/10.1038/nbt.3403 10.1038/nbt.3403]; GPMDB: [http://gpmdb.org/data/keyword/26571101 55].
+
#Sun S, Shah P, Eshghi ST, Yang W, Trikannad N, Yang S, Chen L, Aiyetan P, Höti N, Zhang Z, Chan DW, Zhang H,  (2016) &quot;Comprehensive analysis of protein glycosylation by solid-phase extraction of N-linked glycans and glycosite-containing peptides.&quot; <i>Nat Biotechnol</i> <b>34</b>(1):84&ndash;8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26571101 26571101]; doi: [https://dx.doi.org/10.1038/nbt.3403 10.1038/nbt.3403]; GPMDB: [http://gpmdb.org/data/keyword/26571101 55].
#Wagner SA, Oehler H, Voigt A, Dalic D, Freiwald A, Serve H, Beli P,  (2016) &quot;ATR inhibition rewires cellular signaling networks induced by replication stress.&quot; <i>Proteomics</i> <b>16</b>(3):402&ndash;16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26572502 26572502]; doi: [https://dx.doi.org/10.1002/pmic.201500172 10.1002/pmic.201500172]; GPMDB: [http://gpmdb.org/data/keyword/26572502 20].
#Wagner SA, Oehler H, Voigt A, Dalic D, Freiwald A, Serve H, Beli P,  (2016) &quot;ATR inhibition rewires cellular signaling networks induced by replication stress.&quot; <i>Proteomics</i> <b>16</b>(3):402&ndash;16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26572502 26572502]; doi: [https://dx.doi.org/10.1002/pmic.201500172 10.1002/pmic.201500172]; GPMDB: [http://gpmdb.org/data/keyword/26572502 20].
#Lichtman JS, Alsentzer E, Jaffe M, Sprockett D, Masutani E, Ikwa E, Fragiadakis GK, Clifford D, Huang BE, Sonnenburg JL, Huang KC, Elias JE,  (2015) &quot;The effect of microbial colonization on the host proteome varies by gastrointestinal location.&quot; <i>ISME J</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26574685 26574685]; doi: [https://dx.doi.org/10.1038/ismej.2015.187 10.1038/ismej.2015.187]; GPMDB: [http://gpmdb.org/data/keyword/26574685 45].
#Lichtman JS, Alsentzer E, Jaffe M, Sprockett D, Masutani E, Ikwa E, Fragiadakis GK, Clifford D, Huang BE, Sonnenburg JL, Huang KC, Elias JE,  (2015) &quot;The effect of microbial colonization on the host proteome varies by gastrointestinal location.&quot; <i>ISME J</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26574685 26574685]; doi: [https://dx.doi.org/10.1038/ismej.2015.187 10.1038/ismej.2015.187]; GPMDB: [http://gpmdb.org/data/keyword/26574685 45].
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#Leiser OP, Merkley ED, Clowers BH, Deatherage Kaiser BL, Lin A, Hutchison JR, Melville AM, Wagner DM, Keim PS, Foster JT, Kreuzer HW,  (2015) &quot;Investigation of Yersinia pestis Laboratory Adaptation through a Combined Genomics and Proteomics Approach.&quot; <i>PLoS One</i> <b>10</b>(11):e0142997; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26599979 26599979]; doi: [https://dx.doi.org/10.1371/journal.pone.0142997 10.1371/journal.pone.0142997]; GPMDB: [http://gpmdb.org/data/keyword/26599979 169].
#Leiser OP, Merkley ED, Clowers BH, Deatherage Kaiser BL, Lin A, Hutchison JR, Melville AM, Wagner DM, Keim PS, Foster JT, Kreuzer HW,  (2015) &quot;Investigation of Yersinia pestis Laboratory Adaptation through a Combined Genomics and Proteomics Approach.&quot; <i>PLoS One</i> <b>10</b>(11):e0142997; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26599979 26599979]; doi: [https://dx.doi.org/10.1371/journal.pone.0142997 10.1371/journal.pone.0142997]; GPMDB: [http://gpmdb.org/data/keyword/26599979 169].
#Broncel M, Serwa RA, Bunney TD, Katan M, Tate EW,  (2016) &quot;Global Profiling of Huntingtin-associated protein E (HYPE)-Mediated AMPylation through a Chemical Proteomic Approach.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(2):715&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26604261 26604261]; doi: [https://dx.doi.org/10.1074/mcp.O115.054429 10.1074/mcp.O115.054429]; GPMDB: [http://gpmdb.org/data/keyword/26604261 56].
#Broncel M, Serwa RA, Bunney TD, Katan M, Tate EW,  (2016) &quot;Global Profiling of Huntingtin-associated protein E (HYPE)-Mediated AMPylation through a Chemical Proteomic Approach.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(2):715&ndash;25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26604261 26604261]; doi: [https://dx.doi.org/10.1074/mcp.O115.054429 10.1074/mcp.O115.054429]; GPMDB: [http://gpmdb.org/data/keyword/26604261 56].
-
#Pankow S, Bamberger C, Calzolari D, Martínez-Bartolomé S, Lavallée-Adam M, Balch WE, Yates JR 3rd,  (2015) &quot;∆F508 CFTR interactome remodelling promotes rescue of cystic fibrosis.&quot; <i>Nature</i> <b>528</b>(7583):510&ndash;6; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26618866 26618866]; doi: [https://dx.doi.org/10.1038/nature15729 10.1038/nature15729]; GPMDB: [http://gpmdb.org/data/keyword/26618866 56].
+
#Pankow S, Bamberger C, Calzolari D, Martínez-Bartolomé S, Lavallée-Adam M, Balch WE, Yates JR 3rd,  (2015) &quot;∆F508 CFTR interactome remodelling promotes rescue of cystic fibrosis.&quot; <i>Nature</i> <b>528</b>(7583):510&ndash;6; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26618866 26618866]; doi: [https://dx.doi.org/10.1038/nature15729 10.1038/nature15729]; GPMDB: [http://gpmdb.org/data/keyword/26618866 56].
#Kennedy JJ, Yan P, Zhao L, Ivey RG, Voytovich UJ, Moore HD, Lin C, Pogosova-Agadjanyan EL, Stirewalt DL, Reding KW, Whiteaker JR, Paulovich AG,  (2016) &quot;Immobilized Metal Affinity Chromatography Coupled to Multiple Reaction Monitoring Enables Reproducible Quantification of Phospho-signaling.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(2):726&ndash;39; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26621847 26621847]; doi: [https://dx.doi.org/10.1074/mcp.O115.054940 10.1074/mcp.O115.054940]; GPMDB: [http://gpmdb.org/data/keyword/26621847 114].
#Kennedy JJ, Yan P, Zhao L, Ivey RG, Voytovich UJ, Moore HD, Lin C, Pogosova-Agadjanyan EL, Stirewalt DL, Reding KW, Whiteaker JR, Paulovich AG,  (2016) &quot;Immobilized Metal Affinity Chromatography Coupled to Multiple Reaction Monitoring Enables Reproducible Quantification of Phospho-signaling.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(2):726&ndash;39; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26621847 26621847]; doi: [https://dx.doi.org/10.1074/mcp.O115.054940 10.1074/mcp.O115.054940]; GPMDB: [http://gpmdb.org/data/keyword/26621847 114].
#Urfer M, Bogdanovic J, Lo Monte F, Moehle K, Zerbe K, Omasits U, Ahrens CH, Pessi G, Eberl L, Robinson JA,  (2016) &quot;A Peptidomimetic Antibiotic Targets Outer Membrane Proteins and Disrupts Selectively the Outer Membrane in Escherichia coli.&quot; <i>J Biol Chem</i> <b>291</b>(4):1921&ndash;32; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26627837 26627837]; doi: [https://dx.doi.org/10.1074/jbc.M115.691725 10.1074/jbc.M115.691725]; GPMDB: [http://gpmdb.org/data/keyword/26627837 59].
#Urfer M, Bogdanovic J, Lo Monte F, Moehle K, Zerbe K, Omasits U, Ahrens CH, Pessi G, Eberl L, Robinson JA,  (2016) &quot;A Peptidomimetic Antibiotic Targets Outer Membrane Proteins and Disrupts Selectively the Outer Membrane in Escherichia coli.&quot; <i>J Biol Chem</i> <b>291</b>(4):1921&ndash;32; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26627837 26627837]; doi: [https://dx.doi.org/10.1074/jbc.M115.691725 10.1074/jbc.M115.691725]; GPMDB: [http://gpmdb.org/data/keyword/26627837 59].
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#Xu B, Xiong F, Tian R, Zhan S, Gao Y, Qiu W, Wang R, Ge W, Ma C,  (2016) &quot;Temporal lobe in human aging: A quantitative protein profiling study of samples from Chinese Human Brain Bank.&quot; <i>Exp Gerontol</i> <b>73</b>:31&ndash;41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26631761 26631761]; doi: [https://dx.doi.org/10.1016/j.exger.2015.11.016 10.1016/j.exger.2015.11.016]; GPMDB: [http://gpmdb.org/data/keyword/26631761 1].
#Xu B, Xiong F, Tian R, Zhan S, Gao Y, Qiu W, Wang R, Ge W, Ma C,  (2016) &quot;Temporal lobe in human aging: A quantitative protein profiling study of samples from Chinese Human Brain Bank.&quot; <i>Exp Gerontol</i> <b>73</b>:31&ndash;41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26631761 26631761]; doi: [https://dx.doi.org/10.1016/j.exger.2015.11.016 10.1016/j.exger.2015.11.016]; GPMDB: [http://gpmdb.org/data/keyword/26631761 1].
#Aguado BA, Wu JJ, Azarin SM, Nanavati D, Rao SS, Bushnell GG, Medicherla CB, Shea LD,  (2015) &quot;Secretome identification of immune cell factors mediating metastatic cell homing.&quot; <i>Sci Rep</i> <b>5</b>:17566; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26634905 26634905]; doi: [https://dx.doi.org/10.1038/srep17566 10.1038/srep17566]; GPMDB: [http://gpmdb.org/data/keyword/26634905 6].
#Aguado BA, Wu JJ, Azarin SM, Nanavati D, Rao SS, Bushnell GG, Medicherla CB, Shea LD,  (2015) &quot;Secretome identification of immune cell factors mediating metastatic cell homing.&quot; <i>Sci Rep</i> <b>5</b>:17566; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26634905 26634905]; doi: [https://dx.doi.org/10.1038/srep17566 10.1038/srep17566]; GPMDB: [http://gpmdb.org/data/keyword/26634905 6].
-
#Padden J, Ahrens M, Kälsch J, Bertram S, Megger DA, Bracht T, Eisenacher M, Kocabayoglu P, Meyer HE, Sipos B, Baba HA, Sitek B,  (2016) &quot;Immunohistochemical Markers Distinguishing Cholangiocellular Carcinoma (CCC) from Pancreatic Ductal Adenocarcinoma (PDAC) Discovered by Proteomic Analysis of Microdissected Cells.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(3):1072&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26644413 26644413]; doi: [https://dx.doi.org/10.1074/mcp.M115.054585 10.1074/mcp.M115.054585]; GPMDB: [http://gpmdb.org/data/keyword/26644413 66].
+
#Padden J, Ahrens M, Kälsch J, Bertram S, Megger DA, Bracht T, Eisenacher M, Kocabayoglu P, Meyer HE, Sipos B, Baba HA, Sitek B,  (2016) &quot;Immunohistochemical Markers Distinguishing Cholangiocellular Carcinoma (CCC) from Pancreatic Ductal Adenocarcinoma (PDAC) Discovered by Proteomic Analysis of Microdissected Cells.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(3):1072&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26644413 26644413]; doi: [https://dx.doi.org/10.1074/mcp.M115.054585 10.1074/mcp.M115.054585]; GPMDB: [http://gpmdb.org/data/keyword/26644413 66].
#Xu J, Gao J, Yu C, He H, Yang Y, Figeys D, Zhou H,  (2016) &quot;Development of Online pH Gradient-Eluted Strong Cation Exchange Nanoelectrospray-Tandem Mass Spectrometry for Proteomic Analysis Facilitating Basic and Histidine-Containing Peptides Identification.&quot; <i>Anal Chem</i> <b>88</b>(1):583&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26646553 26646553]; doi: [https://dx.doi.org/10.1021/acs.analchem.5b04000 10.1021/acs.analchem.5b04000]; GPMDB: [http://gpmdb.org/data/keyword/26646553 6].
#Xu J, Gao J, Yu C, He H, Yang Y, Figeys D, Zhou H,  (2016) &quot;Development of Online pH Gradient-Eluted Strong Cation Exchange Nanoelectrospray-Tandem Mass Spectrometry for Proteomic Analysis Facilitating Basic and Histidine-Containing Peptides Identification.&quot; <i>Anal Chem</i> <b>88</b>(1):583&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26646553 26646553]; doi: [https://dx.doi.org/10.1021/acs.analchem.5b04000 10.1021/acs.analchem.5b04000]; GPMDB: [http://gpmdb.org/data/keyword/26646553 6].
#Kasvandik S, Samuel K, Peters M, Eimre M, Peet N, Roost AM, Padrik L, Paju K, Peil L, Salumets A,  (2016) &quot;Deep Quantitative Proteomics Reveals Extensive Metabolic Reprogramming and Cancer-Like Changes of Ectopic Endometriotic Stromal Cells.&quot; <i>J Proteome Res</i> <b>15</b>(2):572&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26654049 26654049]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00965 10.1021/acs.jproteome.5b00965]; GPMDB: [http://gpmdb.org/data/keyword/26654049 21].
#Kasvandik S, Samuel K, Peters M, Eimre M, Peet N, Roost AM, Padrik L, Paju K, Peil L, Salumets A,  (2016) &quot;Deep Quantitative Proteomics Reveals Extensive Metabolic Reprogramming and Cancer-Like Changes of Ectopic Endometriotic Stromal Cells.&quot; <i>J Proteome Res</i> <b>15</b>(2):572&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26654049 26654049]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00965 10.1021/acs.jproteome.5b00965]; GPMDB: [http://gpmdb.org/data/keyword/26654049 21].
-
#Farina F, Gaillard J, Guérin C, Couté Y, Sillibourne J, Blanchoin L, Théry M,  (2016) &quot;The centrosome is an actin-organizing centre.&quot; <i>Nat Cell Biol</i> <b>18</b>(1):65&ndash;75; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26655833 26655833]; doi: [https://dx.doi.org/10.1038/ncb3285 10.1038/ncb3285]; GPMDB: [http://gpmdb.org/data/keyword/26655833 2].
+
#Farina F, Gaillard J, Guérin C, Couté Y, Sillibourne J, Blanchoin L, Théry M,  (2016) &quot;The centrosome is an actin-organizing centre.&quot; <i>Nat Cell Biol</i> <b>18</b>(1):65&ndash;75; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26655833 26655833]; doi: [https://dx.doi.org/10.1038/ncb3285 10.1038/ncb3285]; GPMDB: [http://gpmdb.org/data/keyword/26655833 2].
-
#Giguère SS, Guise AJ, Jean Beltran PM, Joshi PM, Greco TM, Quach OL, Kong J, Cristea IM,  (2016) &quot;The Proteomic Profile of Deleted in Breast Cancer 1 (DBC1) Interactions Points to a Multifaceted Regulation of Gene Expression.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(3):791&ndash;809; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26657080 26657080]; doi: [https://dx.doi.org/10.1074/mcp.M115.054619 10.1074/mcp.M115.054619]; GPMDB: [http://gpmdb.org/data/keyword/26657080 109].
+
#Giguère SS, Guise AJ, Jean Beltran PM, Joshi PM, Greco TM, Quach OL, Kong J, Cristea IM,  (2016) &quot;The Proteomic Profile of Deleted in Breast Cancer 1 (DBC1) Interactions Points to a Multifaceted Regulation of Gene Expression.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(3):791&ndash;809; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26657080 26657080]; doi: [https://dx.doi.org/10.1074/mcp.M115.054619 10.1074/mcp.M115.054619]; GPMDB: [http://gpmdb.org/data/keyword/26657080 109].
#Su S, Zhu X, Lin L, Chen X, Wang Y, Zi J, Dong Y, Xie Y, Zhu Y, Zhang J, Zhu J, Xu D, Xu N, Lou X, Liu S,  (2015) &quot;Lowering endogenous cathepsin D abundance results in ROS accumulation and cell senescence.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26657266 26657266]; doi: [https://dx.doi.org/10.1074/mcp.M115.050179 10.1074/mcp.M115.050179]; GPMDB: [http://gpmdb.org/data/keyword/26657266 154].
#Su S, Zhu X, Lin L, Chen X, Wang Y, Zi J, Dong Y, Xie Y, Zhu Y, Zhang J, Zhu J, Xu D, Xu N, Lou X, Liu S,  (2015) &quot;Lowering endogenous cathepsin D abundance results in ROS accumulation and cell senescence.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26657266 26657266]; doi: [https://dx.doi.org/10.1074/mcp.M115.050179 10.1074/mcp.M115.050179]; GPMDB: [http://gpmdb.org/data/keyword/26657266 154].
#Park JM, Park JH, Mun DG, Bae J, Jung JH, Back S, Lee H, Kim H, Jung HJ, Kim HK, Lee H, Kim KP, Hwang D, Lee SW,  (2015) &quot;Integrated analysis of global proteome, phosphoproteome, and glycoproteome enables complementary interpretation of disease-related protein networks.&quot; <i>Sci Rep</i> <b>5</b>:18189; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26657352 26657352]; doi: [https://dx.doi.org/10.1038/srep18189 10.1038/srep18189]; GPMDB: [http://gpmdb.org/data/keyword/26657352 144].
#Park JM, Park JH, Mun DG, Bae J, Jung JH, Back S, Lee H, Kim H, Jung HJ, Kim HK, Lee H, Kim KP, Hwang D, Lee SW,  (2015) &quot;Integrated analysis of global proteome, phosphoproteome, and glycoproteome enables complementary interpretation of disease-related protein networks.&quot; <i>Sci Rep</i> <b>5</b>:18189; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26657352 26657352]; doi: [https://dx.doi.org/10.1038/srep18189 10.1038/srep18189]; GPMDB: [http://gpmdb.org/data/keyword/26657352 144].
#Chen M, Hu Y, Liu J, Wu Q, Zhang C, Yu J, Xiao J, Wei F, Wu J,  (2015) &quot;Improvement of genome assembly completeness and identification of novel full-length protein-coding genes by RNA-seq in the giant panda genome.&quot; <i>Sci Rep</i> <b>5</b>:18019; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26658305 26658305]; doi: [https://dx.doi.org/10.1038/srep18019 10.1038/srep18019]; GPMDB: [http://gpmdb.org/data/keyword/26658305 36].
#Chen M, Hu Y, Liu J, Wu Q, Zhang C, Yu J, Xiao J, Wei F, Wu J,  (2015) &quot;Improvement of genome assembly completeness and identification of novel full-length protein-coding genes by RNA-seq in the giant panda genome.&quot; <i>Sci Rep</i> <b>5</b>:18019; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26658305 26658305]; doi: [https://dx.doi.org/10.1038/srep18019 10.1038/srep18019]; GPMDB: [http://gpmdb.org/data/keyword/26658305 36].
#Mizuno Y, Nagano-Shoji M, Kubo S, Kawamura Y, Yoshida A, Kawasaki H, Nishiyama M, Yoshida M, Kosono S,  (2016) &quot;Altered acetylation and succinylation profiles in Corynebacterium glutamicum in response to conditions inducing glutamate overproduction.&quot; <i>Microbiologyopen</i> <b>5</b>(1):152&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26663479 26663479]; doi: [https://dx.doi.org/10.1002/mbo3.320 10.1002/mbo3.320]; GPMDB: [http://gpmdb.org/data/keyword/26663479 10].
#Mizuno Y, Nagano-Shoji M, Kubo S, Kawamura Y, Yoshida A, Kawasaki H, Nishiyama M, Yoshida M, Kosono S,  (2016) &quot;Altered acetylation and succinylation profiles in Corynebacterium glutamicum in response to conditions inducing glutamate overproduction.&quot; <i>Microbiologyopen</i> <b>5</b>(1):152&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26663479 26663479]; doi: [https://dx.doi.org/10.1002/mbo3.320 10.1002/mbo3.320]; GPMDB: [http://gpmdb.org/data/keyword/26663479 10].
-
#Ulaganathan VK, Sperl B, Rapp UR, Ullrich A,  (2015) &quot;Germline variant FGFR4  p.G388R exposes a membrane-proximal STAT3 binding site.&quot; <i>Nature</i> <b>528</b>(7583):570&ndash;4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26675719 26675719]; doi: [https://dx.doi.org/10.1038/nature16449 10.1038/nature16449]; GPMDB: [http://gpmdb.org/data/keyword/26675719 32].
+
#Ulaganathan VK, Sperl B, Rapp UR, Ullrich A,  (2015) &quot;Germline variant FGFR4  p.G388R exposes a membrane-proximal STAT3 binding site.&quot; <i>Nature</i> <b>528</b>(7583):570&ndash;4; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26675719 26675719]; doi: [https://dx.doi.org/10.1038/nature16449 10.1038/nature16449]; GPMDB: [http://gpmdb.org/data/keyword/26675719 32].
#Aronica L, Kasparek T, Ruchman D, Marquez Y, Cipak L, Cipakova I, Anrather D, Mikolaskova B, Radtke M, Sarkar S, Pai CC, Blaikley E, Walker C, Shen KF, Schroeder R, Barta A, Forsburg SL, Humphrey TC,  (2016) &quot;The spliceosome-associated protein Nrl1 suppresses homologous recombination-dependent R-loop formation in fission yeast.&quot; <i>Nucleic Acids Res</i> <b>44</b>(4):1703&ndash;17; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26682798 26682798]; doi: [https://dx.doi.org/10.1093/nar/gkv1473 10.1093/nar/gkv1473]; GPMDB: [http://gpmdb.org/data/keyword/26682798 4].
#Aronica L, Kasparek T, Ruchman D, Marquez Y, Cipak L, Cipakova I, Anrather D, Mikolaskova B, Radtke M, Sarkar S, Pai CC, Blaikley E, Walker C, Shen KF, Schroeder R, Barta A, Forsburg SL, Humphrey TC,  (2016) &quot;The spliceosome-associated protein Nrl1 suppresses homologous recombination-dependent R-loop formation in fission yeast.&quot; <i>Nucleic Acids Res</i> <b>44</b>(4):1703&ndash;17; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26682798 26682798]; doi: [https://dx.doi.org/10.1093/nar/gkv1473 10.1093/nar/gkv1473]; GPMDB: [http://gpmdb.org/data/keyword/26682798 4].
#Rudney JD, Jagtap PD, Reilly CS, Chen R, Markowski TW, Higgins L, Johnson JE, Griffin TJ,  (2015) &quot;Protein relative abundance patterns associated with sucrose-induced dysbiosis are conserved across taxonomically diverse oral microcosm biofilm models of dental caries.&quot; <i>Microbiome</i> <b>3</b>:69; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26684897 26684897]; doi: [https://dx.doi.org/10.1186/s40168-015-0136-z 10.1186/s40168-015-0136-z]; GPMDB: [http://gpmdb.org/data/keyword/26684897 24].
#Rudney JD, Jagtap PD, Reilly CS, Chen R, Markowski TW, Higgins L, Johnson JE, Griffin TJ,  (2015) &quot;Protein relative abundance patterns associated with sucrose-induced dysbiosis are conserved across taxonomically diverse oral microcosm biofilm models of dental caries.&quot; <i>Microbiome</i> <b>3</b>:69; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26684897 26684897]; doi: [https://dx.doi.org/10.1186/s40168-015-0136-z 10.1186/s40168-015-0136-z]; GPMDB: [http://gpmdb.org/data/keyword/26684897 24].
#Debaisieux S, Encheva V, Chakravarty P, Snijders AP, Schiavo G,  (2016) &quot;Analysis of Signaling Endosome Composition and Dynamics Using SILAC in Embryonic Stem Cell-Derived Neurons.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(2):542&ndash;57; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26685126 26685126]; doi: [https://dx.doi.org/10.1074/mcp.M115.051649 10.1074/mcp.M115.051649]; GPMDB: [http://gpmdb.org/data/keyword/26685126 28].
#Debaisieux S, Encheva V, Chakravarty P, Snijders AP, Schiavo G,  (2016) &quot;Analysis of Signaling Endosome Composition and Dynamics Using SILAC in Embryonic Stem Cell-Derived Neurons.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(2):542&ndash;57; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26685126 26685126]; doi: [https://dx.doi.org/10.1074/mcp.M115.051649 10.1074/mcp.M115.051649]; GPMDB: [http://gpmdb.org/data/keyword/26685126 28].
-
#Oberbach A, Adams V, Schlichting N, Heinrich M, Kullnick Y, Lehmann S, Lehmann S, Feder S, Correia JC, Mohr FW, Völker U, Jehmlich N,  (2016) &quot;Proteome profiles of HDL particles of patients with chronic heart failure are associated with immune response and also include bacteria proteins.&quot; <i>Clin Chim Acta</i> <b>453</b>:114&ndash;22; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26688386 26688386]; doi: [https://dx.doi.org/10.1016/j.cca.2015.12.005 10.1016/j.cca.2015.12.005]; GPMDB: [http://gpmdb.org/data/keyword/26688386 10].
+
#Oberbach A, Adams V, Schlichting N, Heinrich M, Kullnick Y, Lehmann S, Lehmann S, Feder S, Correia JC, Mohr FW, Völker U, Jehmlich N,  (2016) &quot;Proteome profiles of HDL particles of patients with chronic heart failure are associated with immune response and also include bacteria proteins.&quot; <i>Clin Chim Acta</i> <b>453</b>:114&ndash;22; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26688386 26688386]; doi: [https://dx.doi.org/10.1016/j.cca.2015.12.005 10.1016/j.cca.2015.12.005]; GPMDB: [http://gpmdb.org/data/keyword/26688386 10].
#Eitzinger N, Wagner V, Weisheit W, Geimer S, Boness D, Kreimer G, Mittag M,  (2015) &quot;Proteomic Analysis of a Fraction with Intact Eyespots of Chlamydomonas reinhardtii and Assignment of Protein Methylation.&quot; <i>Front Plant Sci</i> <b>6</b>:1085; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26697039 26697039]; doi: [https://dx.doi.org/10.3389/fpls.2015.01085 10.3389/fpls.2015.01085]; GPMDB: [http://gpmdb.org/data/keyword/26697039 128].
#Eitzinger N, Wagner V, Weisheit W, Geimer S, Boness D, Kreimer G, Mittag M,  (2015) &quot;Proteomic Analysis of a Fraction with Intact Eyespots of Chlamydomonas reinhardtii and Assignment of Protein Methylation.&quot; <i>Front Plant Sci</i> <b>6</b>:1085; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26697039 26697039]; doi: [https://dx.doi.org/10.3389/fpls.2015.01085 10.3389/fpls.2015.01085]; GPMDB: [http://gpmdb.org/data/keyword/26697039 128].
#Kozlov SV, Waardenberg AJ, Engholm-Keller K, Arthur JW, Graham ME, Lavin M,  (2016) &quot;Reactive Oxygen Species (ROS)-Activated ATM-Dependent Phosphorylation of Cytoplasmic Substrates Identified by Large-Scale Phosphoproteomics Screen.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(3):1032&ndash;47; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26699800 26699800]; doi: [https://dx.doi.org/10.1074/mcp.M115.055723 10.1074/mcp.M115.055723]; GPMDB: [http://gpmdb.org/data/keyword/26699800 141].
#Kozlov SV, Waardenberg AJ, Engholm-Keller K, Arthur JW, Graham ME, Lavin M,  (2016) &quot;Reactive Oxygen Species (ROS)-Activated ATM-Dependent Phosphorylation of Cytoplasmic Substrates Identified by Large-Scale Phosphoproteomics Screen.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(3):1032&ndash;47; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26699800 26699800]; doi: [https://dx.doi.org/10.1074/mcp.M115.055723 10.1074/mcp.M115.055723]; GPMDB: [http://gpmdb.org/data/keyword/26699800 141].
-
#El Ouaamari A, Dirice E, Gedeon N, Hu J, Zhou JY, Shirakawa J, Hou L, Goodman J, Karampelias C, Qiang G, Boucher J, Martinez R, Gritsenko MA, De Jesus DF, Kahraman S, Bhatt S, Smith RD, Beer HD, Jungtrakoon P, Gong Y, Goldfine AB, Liew CW, Doria A, Andersson O, Qian WJ, Remold-O'Donnell E, Kulkarni RN,  (2016) &quot;SerpinB1 Promotes Pancreatic β Cell Proliferation.&quot; <i>Cell Metab</i> <b>23</b>(1):194&ndash;205; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26701651 26701651]; doi: [https://dx.doi.org/10.1016/j.cmet.2015.12.001 10.1016/j.cmet.2015.12.001]; GPMDB: [http://gpmdb.org/data/keyword/26701651 4].
+
#El Ouaamari A, Dirice E, Gedeon N, Hu J, Zhou JY, Shirakawa J, Hou L, Goodman J, Karampelias C, Qiang G, Boucher J, Martinez R, Gritsenko MA, De Jesus DF, Kahraman S, Bhatt S, Smith RD, Beer HD, Jungtrakoon P, Gong Y, Goldfine AB, Liew CW, Doria A, Andersson O, Qian WJ, Remold-O'Donnell E, Kulkarni RN,  (2016) &quot;SerpinB1 Promotes Pancreatic β Cell Proliferation.&quot; <i>Cell Metab</i> <b>23</b>(1):194&ndash;205; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26701651 26701651]; doi: [https://dx.doi.org/10.1016/j.cmet.2015.12.001 10.1016/j.cmet.2015.12.001]; GPMDB: [http://gpmdb.org/data/keyword/26701651 4].
-
#Lluch-Senar M, Mancuso FM, Climente-González H, Peña-Paz MI, Sabido E, Serrano L,  (2016) &quot;Rescuing discarded spectra: Full comprehensive analysis of a minimal proteome.&quot; <i>Proteomics</i> <b>16</b>(4):554&ndash;63; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26702875 26702875]; doi: [https://dx.doi.org/10.1002/pmic.201500187 10.1002/pmic.201500187]; GPMDB: [http://gpmdb.org/data/keyword/26702875 2].
+
#Lluch-Senar M, Mancuso FM, Climente-González H, Peña-Paz MI, Sabido E, Serrano L,  (2016) &quot;Rescuing discarded spectra: Full comprehensive analysis of a minimal proteome.&quot; <i>Proteomics</i> <b>16</b>(4):554&ndash;63; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26702875 26702875]; doi: [https://dx.doi.org/10.1002/pmic.201500187 10.1002/pmic.201500187]; GPMDB: [http://gpmdb.org/data/keyword/26702875 2].
#Thierry E, Guilligay D, Kosinski J, Bock T, Gaudon S, Round A, Pflug A, Hengrung N, El Omari K, Baudin F, Hart DJ, Beck M, Cusack S,  (2016) &quot;Influenza Polymerase Can Adopt an Alternative Configuration Involving a Radical Repacking of PB2 Domains.&quot; <i>Mol Cell</i> <b>61</b>(1):125&ndash;37; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26711008 26711008]; doi: [https://dx.doi.org/10.1016/j.molcel.2015.11.016 10.1016/j.molcel.2015.11.016]; GPMDB: [http://gpmdb.org/data/keyword/26711008 44].
#Thierry E, Guilligay D, Kosinski J, Bock T, Gaudon S, Round A, Pflug A, Hengrung N, El Omari K, Baudin F, Hart DJ, Beck M, Cusack S,  (2016) &quot;Influenza Polymerase Can Adopt an Alternative Configuration Involving a Radical Repacking of PB2 Domains.&quot; <i>Mol Cell</i> <b>61</b>(1):125&ndash;37; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26711008 26711008]; doi: [https://dx.doi.org/10.1016/j.molcel.2015.11.016 10.1016/j.molcel.2015.11.016]; GPMDB: [http://gpmdb.org/data/keyword/26711008 44].
#Bigenzahn JW, Fauster A, Rebsamen M, Kandasamy RK, Scorzoni S, Vladimer GI, Mueller AC, Gstaiger M, Zuber J, Bennett KL, Superti-Furga G,  (2015) &quot;An inducible retroviral expression system for tandem affinity purification mass-spectrometry-based proteomics identifies MLKL as an HSP90 client.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26714523 26714523]; doi: [https://dx.doi.org/10.1074/mcp.O115.055350 10.1074/mcp.O115.055350]; GPMDB: [http://gpmdb.org/data/keyword/26714523 16].
#Bigenzahn JW, Fauster A, Rebsamen M, Kandasamy RK, Scorzoni S, Vladimer GI, Mueller AC, Gstaiger M, Zuber J, Bennett KL, Superti-Furga G,  (2015) &quot;An inducible retroviral expression system for tandem affinity purification mass-spectrometry-based proteomics identifies MLKL as an HSP90 client.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26714523 26714523]; doi: [https://dx.doi.org/10.1074/mcp.O115.055350 10.1074/mcp.O115.055350]; GPMDB: [http://gpmdb.org/data/keyword/26714523 16].
#Bode D, Yu L, Tate P, Pardo M, Choudhary J,  (2016) &quot;Characterization of Two Distinct Nucleosome Remodeling and Deacetylase (NuRD) Complex Assemblies in Embryonic Stem Cells.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(3):878&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26714524 26714524]; doi: [https://dx.doi.org/10.1074/mcp.M115.053207 10.1074/mcp.M115.053207]; GPMDB: [http://gpmdb.org/data/keyword/26714524 179].
#Bode D, Yu L, Tate P, Pardo M, Choudhary J,  (2016) &quot;Characterization of Two Distinct Nucleosome Remodeling and Deacetylase (NuRD) Complex Assemblies in Embryonic Stem Cells.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(3):878&ndash;91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26714524 26714524]; doi: [https://dx.doi.org/10.1074/mcp.M115.053207 10.1074/mcp.M115.053207]; GPMDB: [http://gpmdb.org/data/keyword/26714524 179].
#McAfee A, Harpur BA, Michaud S, Beavis RC, Kent CF, Zayed A, Foster LJ,  (2016) &quot;Toward an Upgraded Honey Bee (Apis mellifera L.) Genome Annotation Using Proteogenomics.&quot; <i>J Proteome Res</i> <b>15</b>(2):411&ndash;21; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26718741 26718741]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00589 10.1021/acs.jproteome.5b00589]; GPMDB: [http://gpmdb.org/data/keyword/26718741 27].
#McAfee A, Harpur BA, Michaud S, Beavis RC, Kent CF, Zayed A, Foster LJ,  (2016) &quot;Toward an Upgraded Honey Bee (Apis mellifera L.) Genome Annotation Using Proteogenomics.&quot; <i>J Proteome Res</i> <b>15</b>(2):411&ndash;21; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26718741 26718741]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00589 10.1021/acs.jproteome.5b00589]; GPMDB: [http://gpmdb.org/data/keyword/26718741 27].
-
#Li Q, Chang Z, Oliveira G, Xiong M, Smith LM, Frey BL, Welham NV,  (2016) &quot;Protein turnover during in vitro tissue engineering.&quot; <i>Biomaterials</i> <b>81</b>:104&ndash;13; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26724458 26724458]; doi: [https://dx.doi.org/10.1016/j.biomaterials.2015.12.004 10.1016/j.biomaterials.2015.12.004]; GPMDB: [http://gpmdb.org/data/keyword/26724458 66].
+
#Li Q, Chang Z, Oliveira G, Xiong M, Smith LM, Frey BL, Welham NV,  (2016) &quot;Protein turnover during in vitro tissue engineering.&quot; <i>Biomaterials</i> <b>81</b>:104&ndash;13; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26724458 26724458]; doi: [https://dx.doi.org/10.1016/j.biomaterials.2015.12.004 10.1016/j.biomaterials.2015.12.004]; GPMDB: [http://gpmdb.org/data/keyword/26724458 66].
#Tyanova S, Albrechtsen R, Kronqvist P, Cox J, Mann M, Geiger T,  (2016) &quot;Proteomic maps of breast cancer subtypes.&quot; <i>Nat Commun</i> <b>7</b>:10259; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26725330 26725330]; doi: [https://dx.doi.org/10.1038/ncomms10259 10.1038/ncomms10259]; GPMDB: [http://gpmdb.org/data/keyword/26725330 381].
#Tyanova S, Albrechtsen R, Kronqvist P, Cox J, Mann M, Geiger T,  (2016) &quot;Proteomic maps of breast cancer subtypes.&quot; <i>Nat Commun</i> <b>7</b>:10259; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26725330 26725330]; doi: [https://dx.doi.org/10.1038/ncomms10259 10.1038/ncomms10259]; GPMDB: [http://gpmdb.org/data/keyword/26725330 381].
-
#Laumont CM, Daouda T, Laverdure JP, Bonneil É, Caron-Lizotte O, Hardy MP, Granados DP, Durette C, Lemieux S, Thibault P, Perreault C,  (2016) &quot;Global proteogenomic analysis of human MHC class I-associated peptides derived from non-canonical reading frames.&quot; <i>Nat Commun</i> <b>7</b>:10238; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26728094 26728094]; doi: [https://dx.doi.org/10.1038/ncomms10238 10.1038/ncomms10238]; GPMDB: [http://gpmdb.org/data/keyword/26728094 35].
+
#Laumont CM, Daouda T, Laverdure JP, Bonneil É, Caron-Lizotte O, Hardy MP, Granados DP, Durette C, Lemieux S, Thibault P, Perreault C,  (2016) &quot;Global proteogenomic analysis of human MHC class I-associated peptides derived from non-canonical reading frames.&quot; <i>Nat Commun</i> <b>7</b>:10238; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26728094 26728094]; doi: [https://dx.doi.org/10.1038/ncomms10238 10.1038/ncomms10238]; GPMDB: [http://gpmdb.org/data/keyword/26728094 35].
#Guo Z, Kong Q, Liu C, Zhang S, Zou L, Yan F, Whitmire JK, Xiong Y, Chen X, Wan YY,  (2016) &quot;DCAF1 controls T-cell function via p53-dependent and -independent mechanisms.&quot; <i>Nat Commun</i> <b>7</b>:10307; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26728942 26728942]; doi: [https://dx.doi.org/10.1038/ncomms10307 10.1038/ncomms10307]; GPMDB: [http://gpmdb.org/data/keyword/26728942 120].
#Guo Z, Kong Q, Liu C, Zhang S, Zou L, Yan F, Whitmire JK, Xiong Y, Chen X, Wan YY,  (2016) &quot;DCAF1 controls T-cell function via p53-dependent and -independent mechanisms.&quot; <i>Nat Commun</i> <b>7</b>:10307; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26728942 26728942]; doi: [https://dx.doi.org/10.1038/ncomms10307 10.1038/ncomms10307]; GPMDB: [http://gpmdb.org/data/keyword/26728942 120].
-
#Supper V, Schiller HB, Paster W, Forster F, Boulègue C, Mitulovic G, Leksa V, Ohradanova-Repic A, Machacek C, Schatzlmaier P, Zlabinger GJ, Stockinger H,  (2016) &quot;Association of CD147 and Calcium Exporter PMCA4 Uncouples IL-2 Expression from Early TCR Signaling.&quot; <i>J Immunol</i> <b>196</b>(3):1387&ndash;99; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26729804 26729804]; doi: [https://dx.doi.org/10.4049/jimmunol.1501889 10.4049/jimmunol.1501889]; GPMDB: [http://gpmdb.org/data/keyword/26729804 27].
+
#Supper V, Schiller HB, Paster W, Forster F, Boulègue C, Mitulovic G, Leksa V, Ohradanova-Repic A, Machacek C, Schatzlmaier P, Zlabinger GJ, Stockinger H,  (2016) &quot;Association of CD147 and Calcium Exporter PMCA4 Uncouples IL-2 Expression from Early TCR Signaling.&quot; <i>J Immunol</i> <b>196</b>(3):1387&ndash;99; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26729804 26729804]; doi: [https://dx.doi.org/10.4049/jimmunol.1501889 10.4049/jimmunol.1501889]; GPMDB: [http://gpmdb.org/data/keyword/26729804 27].
#Clark DJ, Fondrie WE, Yang A, Mao L,  (2016) &quot;Triple SILAC quantitative proteomic analysis reveals differential abundance of cell signaling proteins between normal and lung cancer-derived exosomes.&quot; <i>J Proteomics</i> <b>133</b>:161&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26739763 26739763]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.12.023 10.1016/j.jprot.2015.12.023]; GPMDB: [http://gpmdb.org/data/keyword/26739763 3].
#Clark DJ, Fondrie WE, Yang A, Mao L,  (2016) &quot;Triple SILAC quantitative proteomic analysis reveals differential abundance of cell signaling proteins between normal and lung cancer-derived exosomes.&quot; <i>J Proteomics</i> <b>133</b>:161&ndash;9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26739763 26739763]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.12.023 10.1016/j.jprot.2015.12.023]; GPMDB: [http://gpmdb.org/data/keyword/26739763 3].
#Wandinger SK, Lahortiga I, Jacobs K, Klammer M, Jordan N, Elschenbroich S, Parade M, Jacoby E, Linders JT, Brehmer D, Cools J, Daub H,  (2016) &quot;Quantitative Phosphoproteomics Analysis of ERBB3/ERBB4 Signaling.&quot; <i>PLoS One</i> <b>11</b>(1):e0146100; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26745281 26745281]; doi: [https://dx.doi.org/10.1371/journal.pone.0146100 10.1371/journal.pone.0146100]; GPMDB: [http://gpmdb.org/data/keyword/26745281 72].
#Wandinger SK, Lahortiga I, Jacobs K, Klammer M, Jordan N, Elschenbroich S, Parade M, Jacoby E, Linders JT, Brehmer D, Cools J, Daub H,  (2016) &quot;Quantitative Phosphoproteomics Analysis of ERBB3/ERBB4 Signaling.&quot; <i>PLoS One</i> <b>11</b>(1):e0146100; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26745281 26745281]; doi: [https://dx.doi.org/10.1371/journal.pone.0146100 10.1371/journal.pone.0146100]; GPMDB: [http://gpmdb.org/data/keyword/26745281 72].
#Christoforou A, Mulvey CM, Breckels LM, Geladaki A, Hurrell T, Hayward PC, Naake T, Gatto L, Viner R, Arias AM, Lilley KS,  (2016) &quot;A draft map of the mouse pluripotent stem cell spatial proteome.&quot; <i>Nat Commun</i> <b>7</b>:9992; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26754106 26754106]; doi: [https://dx.doi.org/10.1038/ncomms9992 10.1038/ncomms9992]; GPMDB: [http://gpmdb.org/data/keyword/26754106 2].
#Christoforou A, Mulvey CM, Breckels LM, Geladaki A, Hurrell T, Hayward PC, Naake T, Gatto L, Viner R, Arias AM, Lilley KS,  (2016) &quot;A draft map of the mouse pluripotent stem cell spatial proteome.&quot; <i>Nat Commun</i> <b>7</b>:9992; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26754106 26754106]; doi: [https://dx.doi.org/10.1038/ncomms9992 10.1038/ncomms9992]; GPMDB: [http://gpmdb.org/data/keyword/26754106 2].
-
#Jin J, Tian R, Pasculescu A, Dai AY, Williton K, Taylor L, Savitski MM, Bantscheff M, Woodgett JR, Pawson T, Colwill K,  (2016) &quot;Mutational Analysis of Glycogen Synthase Kinase Protein Kinase Together with Kinome-Wide Binding and Stability Studies Suggests Context-Dependent Recognition of Kinases by the Chaperone Heat Shock Protein 90.&quot; <i>Mol Cell Biol</i> <b>36</b>(6):1007&ndash;18; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26755559 26755559]; doi: [https://dx.doi.org/10.1128/MCB.01045-15 10.1128/MCB.01045-15]; GPMDB: [http://gpmdb.org/data/keyword/26755559 17].
+
#Jin J, Tian R, Pasculescu A, Dai AY, Williton K, Taylor L, Savitski MM, Bantscheff M, Woodgett JR, Pawson T, Colwill K,  (2016) &quot;Mutational Analysis of Glycogen Synthase Kinase 3β Protein Kinase Together with Kinome-Wide Binding and Stability Studies Suggests Context-Dependent Recognition of Kinases by the Chaperone Heat Shock Protein 90.&quot; <i>Mol Cell Biol</i> <b>36</b>(6):1007&ndash;18; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26755559 26755559]; doi: [https://dx.doi.org/10.1128/MCB.01045-15 10.1128/MCB.01045-15]; GPMDB: [http://gpmdb.org/data/keyword/26755559 17].
#So EC, Schroeder GN, Carson D, Mattheis C, Mousnier A, Broncel M, Tate EW, Frankel G,  (2016) &quot;The Rab-binding Profiles of Bacterial Virulence Factors during Infection.&quot; <i>J Biol Chem</i> <b>291</b>(11):5832&ndash;43; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26755725 26755725]; doi: [https://dx.doi.org/10.1074/jbc.M115.700930 10.1074/jbc.M115.700930]; GPMDB: [http://gpmdb.org/data/keyword/26755725 60].
#So EC, Schroeder GN, Carson D, Mattheis C, Mousnier A, Broncel M, Tate EW, Frankel G,  (2016) &quot;The Rab-binding Profiles of Bacterial Virulence Factors during Infection.&quot; <i>J Biol Chem</i> <b>291</b>(11):5832&ndash;43; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26755725 26755725]; doi: [https://dx.doi.org/10.1074/jbc.M115.700930 10.1074/jbc.M115.700930]; GPMDB: [http://gpmdb.org/data/keyword/26755725 60].
#Geddes JM, Caza M, Croll D, Stoynov N, Foster LJ, Kronstad JW,  (2016) &quot;Analysis of the Protein Kinase A-Regulated Proteome of Cryptococcus neoformans Identifies a Role for the Ubiquitin-Proteasome Pathway in Capsule Formation.&quot; <i>MBio</i> <b>7</b>(1):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26758180 26758180]; doi: [https://dx.doi.org/10.1128/mBio.01862-15 10.1128/mBio.01862-15]; GPMDB: [http://gpmdb.org/data/keyword/26758180 133].
#Geddes JM, Caza M, Croll D, Stoynov N, Foster LJ, Kronstad JW,  (2016) &quot;Analysis of the Protein Kinase A-Regulated Proteome of Cryptococcus neoformans Identifies a Role for the Ubiquitin-Proteasome Pathway in Capsule Formation.&quot; <i>MBio</i> <b>7</b>(1):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26758180 26758180]; doi: [https://dx.doi.org/10.1128/mBio.01862-15 10.1128/mBio.01862-15]; GPMDB: [http://gpmdb.org/data/keyword/26758180 133].
#Uren PJ, Bahrami-Samani E, de Araujo PR, Vogel C, Qiao M, Burns SC, Smith AD, Penalva LO,  (2016) &quot;High-throughput analyses of hnRNP H1 dissects its multi-functional aspect.&quot; <i>RNA Biol</i> <b></b>:1&ndash;12; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26760575 26760575]; doi: [https://dx.doi.org/10.1080/15476286.2015.1138030 10.1080/15476286.2015.1138030]; GPMDB: [http://gpmdb.org/data/keyword/26760575 32].
#Uren PJ, Bahrami-Samani E, de Araujo PR, Vogel C, Qiao M, Burns SC, Smith AD, Penalva LO,  (2016) &quot;High-throughput analyses of hnRNP H1 dissects its multi-functional aspect.&quot; <i>RNA Biol</i> <b></b>:1&ndash;12; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26760575 26760575]; doi: [https://dx.doi.org/10.1080/15476286.2015.1138030 10.1080/15476286.2015.1138030]; GPMDB: [http://gpmdb.org/data/keyword/26760575 32].
-
#Neubert P, Halim A, Zauser M, Essig A, Joshi HJ, Zatorska E, Larsen IS, Loibl M, Castells-Ballester J, Aebi M, Clausen H, Strahl S,  (2016) &quot;Mapping the O-mannose glycoproteome in Saccharomyces cerevisiae.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26764011 26764011]; doi: [https://dx.doi.org/10.1074/mcp.M115.057505 10.1074/mcp.M115.057505]; GPMDB: [http://gpmdb.org/data/keyword/26764011 6].
+
#Neubert P, Halim A, Zauser M, Essig A, Joshi HJ, Zatorska E, Larsen IS, Loibl M, Castells-Ballester J, Aebi M, Clausen H, Strahl S,  (2016) &quot;Mapping the O-Mannose Glycoproteome in Saccharomyces cerevisiae.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(4):1323&ndash;37; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26764011 26764011]; doi: [https://dx.doi.org/10.1074/mcp.M115.057505 10.1074/mcp.M115.057505]; GPMDB: [http://gpmdb.org/data/keyword/26764011 6].
-
#Kümper S, Mardakheh FK, McCarthy A, Yeo M, Stamp GW, Paul A, Worboys J, Sadok A, Jørgensen C, Guichard S, Marshall CJ,  (2016) &quot;Rho-associated kinase (ROCK) function is essential for cell cycle progression, senescence and tumorigenesis.&quot; <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26765561 26765561]; doi: [https://dx.doi.org/10.7554/eLife.12203 10.7554/eLife.12203]; GPMDB: [http://gpmdb.org/data/keyword/26765561 28].
+
#Kümper S, Mardakheh FK, McCarthy A, Yeo M, Stamp GW, Paul A, Worboys J, Sadok A, Jørgensen C, Guichard S, Marshall CJ,  (2016) &quot;Rho-associated kinase (ROCK) function is essential for cell cycle progression, senescence and tumorigenesis.&quot; <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26765561 26765561]; doi: [https://dx.doi.org/10.7554/eLife.12203 10.7554/eLife.12203]; GPMDB: [http://gpmdb.org/data/keyword/26765561 28].
#Ma Y, Gao J, Yin J, Gu L, Liu X, Chen S, Huang Q, Lu H, Yang Y, Zhou H, Wang Y, Peng Y,  (2016) &quot;Identification of a Novel Function of Adipocyte Plasma Membrane-Associated Protein (APMAP) in Gestational Diabetes Mellitus by Proteomic Analysis of Omental Adipose Tissue.&quot; <i>J Proteome Res</i> <b>15</b>(2):628&ndash;37; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26767403 26767403]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b01030 10.1021/acs.jproteome.5b01030]; GPMDB: [http://gpmdb.org/data/keyword/26767403 12].
#Ma Y, Gao J, Yin J, Gu L, Liu X, Chen S, Huang Q, Lu H, Yang Y, Zhou H, Wang Y, Peng Y,  (2016) &quot;Identification of a Novel Function of Adipocyte Plasma Membrane-Associated Protein (APMAP) in Gestational Diabetes Mellitus by Proteomic Analysis of Omental Adipose Tissue.&quot; <i>J Proteome Res</i> <b>15</b>(2):628&ndash;37; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26767403 26767403]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b01030 10.1021/acs.jproteome.5b01030]; GPMDB: [http://gpmdb.org/data/keyword/26767403 12].
#Mithoe SC, Ludwig C, Pel MJ, Cucinotta M, Casartelli A, Mbengue M, Sklenar J, Derbyshire P, Robatzek S, Pieterse CM, Aebersold R, Menke FL,  (2016) &quot;Attenuation of pattern recognition receptor signaling is mediated by a MAP kinase kinase kinase.&quot; <i>EMBO Rep</i> <b>17</b>(3):441&ndash;54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26769563 26769563]; doi: [https://dx.doi.org/10.15252/embr.201540806 10.15252/embr.201540806]; GPMDB: [http://gpmdb.org/data/keyword/26769563 64].
#Mithoe SC, Ludwig C, Pel MJ, Cucinotta M, Casartelli A, Mbengue M, Sklenar J, Derbyshire P, Robatzek S, Pieterse CM, Aebersold R, Menke FL,  (2016) &quot;Attenuation of pattern recognition receptor signaling is mediated by a MAP kinase kinase kinase.&quot; <i>EMBO Rep</i> <b>17</b>(3):441&ndash;54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26769563 26769563]; doi: [https://dx.doi.org/10.15252/embr.201540806 10.15252/embr.201540806]; GPMDB: [http://gpmdb.org/data/keyword/26769563 64].
-
#Kwiatkowski M, Wurlitzer M, Krutilin A, Kiani P, Nimer R, Omidi M, Mannaa A, Bussmann T, Bartkowiak K, Kruber S, Uschold S, Steffen P, Lübberstedt J, Küpker N, Petersen H, Knecht R, Hansen NO, Zarrine-Afsar A, Robertson WD, Miller RJ, Schlüter H,  (2016) &quot;Homogenization of tissues via picosecond-infrared laser (PIRL) ablation: Giving a closer view on the in-vivo composition of protein species as compared to mechanical homogenization.&quot; <i>J Proteomics</i> <b>134</b>:193&ndash;202; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26778141 26778141]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.12.029 10.1016/j.jprot.2015.12.029]; GPMDB: [http://gpmdb.org/data/keyword/26778141 372].
+
#Kwiatkowski M, Wurlitzer M, Krutilin A, Kiani P, Nimer R, Omidi M, Mannaa A, Bussmann T, Bartkowiak K, Kruber S, Uschold S, Steffen P, Lübberstedt J, Küpker N, Petersen H, Knecht R, Hansen NO, Zarrine-Afsar A, Robertson WD, Miller RJ, Schlüter H,  (2016) &quot;Homogenization of tissues via picosecond-infrared laser (PIRL) ablation: Giving a closer view on the in-vivo composition of protein species as compared to mechanical homogenization.&quot; <i>J Proteomics</i> <b>134</b>:193&ndash;202; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26778141 26778141]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.12.029 10.1016/j.jprot.2015.12.029]; GPMDB: [http://gpmdb.org/data/keyword/26778141 372].
-
#Peleg S, Feller C, Forne I, Schiller E, Sévin DC, Schauer T, Regnard C, Straub T, Prestel M, Klima C, Schmitt Nogueira M, Becker L, Klopstock T, Sauer U, Becker PB, Imhof A, Ladurner AG,  (2016) &quot;Life span extension by targeting a link between metabolism and histone acetylation in Drosophila.&quot; <i>EMBO Rep</i> <b>17</b>(3):455&ndash;69; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26781291 26781291]; doi: [https://dx.doi.org/10.15252/embr.201541132 10.15252/embr.201541132]; GPMDB: [http://gpmdb.org/data/keyword/26781291 20].
+
#Peleg S, Feller C, Forne I, Schiller E, Sévin DC, Schauer T, Regnard C, Straub T, Prestel M, Klima C, Schmitt Nogueira M, Becker L, Klopstock T, Sauer U, Becker PB, Imhof A, Ladurner AG,  (2016) &quot;Life span extension by targeting a link between metabolism and histone acetylation in Drosophila.&quot; <i>EMBO Rep</i> <b>17</b>(3):455&ndash;69; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26781291 26781291]; doi: [https://dx.doi.org/10.15252/embr.201541132 10.15252/embr.201541132]; GPMDB: [http://gpmdb.org/data/keyword/26781291 20].
-
#Kollipara L, Buchkremer S, Weis J, Brauers E, Hoss M, Rütten S, Caviedes P, Zahedi RP, Roos A,  (2016) &quot;Proteome Profiling and Ultrastructural Characterization of the Human RCMH Cell Line: Myoblastic Properties and Suitability for Myopathological Studies.&quot; <i>J Proteome Res</i> <b>15</b>(3):945&ndash;55; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26781476 26781476]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00972 10.1021/acs.jproteome.5b00972]; GPMDB: [http://gpmdb.org/data/keyword/26781476 1].
+
#Kollipara L, Buchkremer S, Weis J, Brauers E, Hoss M, Rütten S, Caviedes P, Zahedi RP, Roos A,  (2016) &quot;Proteome Profiling and Ultrastructural Characterization of the Human RCMH Cell Line: Myoblastic Properties and Suitability for Myopathological Studies.&quot; <i>J Proteome Res</i> <b>15</b>(3):945&ndash;55; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26781476 26781476]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00972 10.1021/acs.jproteome.5b00972]; GPMDB: [http://gpmdb.org/data/keyword/26781476 1].
#Fang Y, Zhang Q, Wang X, Yang X, Wang X, Huang Z, Jiao Y, Wang J,  (2016) &quot;Quantitative phosphoproteomics reveals genistein as a modulator of cell cycle and DNA damage response pathways in triple-negative breast cancer cells.&quot; <i>Int J Oncol</i> <b>48</b>(3):1016&ndash;28; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26783066 26783066]; doi: [https://dx.doi.org/10.3892/ijo.2016.3327 10.3892/ijo.2016.3327]; GPMDB: [http://gpmdb.org/data/keyword/26783066 2].
#Fang Y, Zhang Q, Wang X, Yang X, Wang X, Huang Z, Jiao Y, Wang J,  (2016) &quot;Quantitative phosphoproteomics reveals genistein as a modulator of cell cycle and DNA damage response pathways in triple-negative breast cancer cells.&quot; <i>Int J Oncol</i> <b>48</b>(3):1016&ndash;28; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26783066 26783066]; doi: [https://dx.doi.org/10.3892/ijo.2016.3327 10.3892/ijo.2016.3327]; GPMDB: [http://gpmdb.org/data/keyword/26783066 2].
#Cheng Z, Teo G, Krueger S, Rock TM, Koh HW, Choi H, Vogel C,  (2016) &quot;Differential dynamics of the mammalian mRNA and protein expression response to misfolding stress.&quot; <i>Mol Syst Biol</i> <b>12</b>(1):855; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26792871 26792871]; GPMDB: [http://gpmdb.org/data/keyword/26792871 138].
#Cheng Z, Teo G, Krueger S, Rock TM, Koh HW, Choi H, Vogel C,  (2016) &quot;Differential dynamics of the mammalian mRNA and protein expression response to misfolding stress.&quot; <i>Mol Syst Biol</i> <b>12</b>(1):855; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26792871 26792871]; GPMDB: [http://gpmdb.org/data/keyword/26792871 138].
#Vincent D, Ezernieks V, Elkins A, Nguyen N, Moate PJ, Cocks BG, Rochfort S,  (2015) &quot;Milk Bottom-Up Proteomics: Method Optimization.&quot; <i>Front Genet</i> <b>6</b>:360; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26793233 26793233]; doi: [https://dx.doi.org/10.3389/fgene.2015.00360 10.3389/fgene.2015.00360]; GPMDB: [http://gpmdb.org/data/keyword/26793233 262].
#Vincent D, Ezernieks V, Elkins A, Nguyen N, Moate PJ, Cocks BG, Rochfort S,  (2015) &quot;Milk Bottom-Up Proteomics: Method Optimization.&quot; <i>Front Genet</i> <b>6</b>:360; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26793233 26793233]; doi: [https://dx.doi.org/10.3389/fgene.2015.00360 10.3389/fgene.2015.00360]; GPMDB: [http://gpmdb.org/data/keyword/26793233 262].
#Li Q, Lex RK, Chung H, Giovanetti SM, Ji Z, Ji H, Person MD, Kim J, Vokes SA,  (2016) &quot;The Pluripotency Factor NANOG Binds to GLI Proteins and Represses Hedgehog-mediated Transcription.&quot; <i>J Biol Chem</i> <b>291</b>(13):7171&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26797124 26797124]; doi: [https://dx.doi.org/10.1074/jbc.M116.714857 10.1074/jbc.M116.714857]; GPMDB: [http://gpmdb.org/data/keyword/26797124 10].
#Li Q, Lex RK, Chung H, Giovanetti SM, Ji Z, Ji H, Person MD, Kim J, Vokes SA,  (2016) &quot;The Pluripotency Factor NANOG Binds to GLI Proteins and Represses Hedgehog-mediated Transcription.&quot; <i>J Biol Chem</i> <b>291</b>(13):7171&ndash;82; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26797124 26797124]; doi: [https://dx.doi.org/10.1074/jbc.M116.714857 10.1074/jbc.M116.714857]; GPMDB: [http://gpmdb.org/data/keyword/26797124 10].
-
#Schüller R, Forné I, Straub T, Schreieck A, Texier Y, Shah N, Decker TM, Cramer P, Imhof A, Eick D,  (2016) &quot;Heptad-Specific Phosphorylation of RNA Polymerase II CTD.&quot; <i>Mol Cell</i> <b>61</b>(2):305&ndash;14; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26799765 26799765]; doi: [https://dx.doi.org/10.1016/j.molcel.2015.12.003 10.1016/j.molcel.2015.12.003]; GPMDB: [http://gpmdb.org/data/keyword/26799765 209].
+
#Schüller R, Forné I, Straub T, Schreieck A, Texier Y, Shah N, Decker TM, Cramer P, Imhof A, Eick D,  (2016) &quot;Heptad-Specific Phosphorylation of RNA Polymerase II CTD.&quot; <i>Mol Cell</i> <b>61</b>(2):305&ndash;14; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26799765 26799765]; doi: [https://dx.doi.org/10.1016/j.molcel.2015.12.003 10.1016/j.molcel.2015.12.003]; GPMDB: [http://gpmdb.org/data/keyword/26799765 209].
-
#Wojtuszkiewicz A, Schuurhuis GJ, Kessler FL, Piersma SR, Knol JC, Pham TV, Jansen G, Musters RJ, van Meerloo J, Assaraf YG, Kaspers GJ, Zweegman S, Cloos J, Jimenez CR,  (2016) &quot;Exosomes secreted by apoptosis-resistant AML blasts harbor regulatory network proteins potentially involved in antagonism of apoptosis.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26801919 26801919]; doi: [https://dx.doi.org/10.1074/mcp.M115.052944 10.1074/mcp.M115.052944]; GPMDB: [http://gpmdb.org/data/keyword/26801919 271].
+
#Wojtuszkiewicz A, Schuurhuis GJ, Kessler FL, Piersma SR, Knol JC, Pham TV, Jansen G, Musters RJ, van Meerloo J, Assaraf YG, Kaspers GJ, Zweegman S, Cloos J, Jimenez CR,  (2016) &quot;Exosomes Secreted by Apoptosis-Resistant Acute Myeloid Leukemia (AML) Blasts Harbor Regulatory Network Proteins Potentially Involved in Antagonism of Apoptosis.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(4):1281&ndash;98; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26801919 26801919]; doi: [https://dx.doi.org/10.1074/mcp.M115.052944 10.1074/mcp.M115.052944]; GPMDB: [http://gpmdb.org/data/keyword/26801919 271].
#Serra A, Zhu H, Gallart-Palau X, Park JE, Ho HH, Tam JP, Sze SK,  (2016) &quot;Plasma proteome coverage is increased by unique peptide recovery from sodium deoxycholate precipitate.&quot; <i>Anal Bioanal Chem</i> <b>408</b>(7):1963&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26804737 26804737]; doi: [https://dx.doi.org/10.1007/s00216-016-9312-7 10.1007/s00216-016-9312-7]; GPMDB: [http://gpmdb.org/data/keyword/26804737 40].
#Serra A, Zhu H, Gallart-Palau X, Park JE, Ho HH, Tam JP, Sze SK,  (2016) &quot;Plasma proteome coverage is increased by unique peptide recovery from sodium deoxycholate precipitate.&quot; <i>Anal Bioanal Chem</i> <b>408</b>(7):1963&ndash;73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26804737 26804737]; doi: [https://dx.doi.org/10.1007/s00216-016-9312-7 10.1007/s00216-016-9312-7]; GPMDB: [http://gpmdb.org/data/keyword/26804737 40].
#Woodford MR, Truman AW, Dunn DM, Jensen SM, Cotran R, Bullard R, Abouelleil M, Beebe K, Wolfgeher D, Wierzbicki S, Post DE, Caza T, Tsutsumi S, Panaretou B, Kron SJ, Trepel JB, Landas S, Prodromou C, Shapiro O, Stetler-Stevenson WG, Bourboulia D, Neckers L, Bratslavsky G, Mollapour M,  (2016) &quot;Mps1 Mediated Phosphorylation of Hsp90 Confers Renal Cell Carcinoma Sensitivity and Selectivity to Hsp90 Inhibitors.&quot; <i>Cell Rep</i> <b>14</b>(4):872&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26804907 26804907]; doi: [https://dx.doi.org/10.1016/j.celrep.2015.12.084 10.1016/j.celrep.2015.12.084]; GPMDB: [http://gpmdb.org/data/keyword/26804907 12].
#Woodford MR, Truman AW, Dunn DM, Jensen SM, Cotran R, Bullard R, Abouelleil M, Beebe K, Wolfgeher D, Wierzbicki S, Post DE, Caza T, Tsutsumi S, Panaretou B, Kron SJ, Trepel JB, Landas S, Prodromou C, Shapiro O, Stetler-Stevenson WG, Bourboulia D, Neckers L, Bratslavsky G, Mollapour M,  (2016) &quot;Mps1 Mediated Phosphorylation of Hsp90 Confers Renal Cell Carcinoma Sensitivity and Selectivity to Hsp90 Inhibitors.&quot; <i>Cell Rep</i> <b>14</b>(4):872&ndash;84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26804907 26804907]; doi: [https://dx.doi.org/10.1016/j.celrep.2015.12.084 10.1016/j.celrep.2015.12.084]; GPMDB: [http://gpmdb.org/data/keyword/26804907 12].
-
#Völker-Albert MC, Pusch MC, Fedisch A, Schilcher P, Schmidt A, Imhof A,  (2016) &quot;A Quantitative Proteomic Analysis of In Vitro Assembled Chromatin.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(3):945&ndash;59; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26811354 26811354]; doi: [https://dx.doi.org/10.1074/mcp.M115.053553 10.1074/mcp.M115.053553]; GPMDB: [http://gpmdb.org/data/keyword/26811354 12].
+
#Völker-Albert MC, Pusch MC, Fedisch A, Schilcher P, Schmidt A, Imhof A,  (2016) &quot;A Quantitative Proteomic Analysis of In Vitro Assembled Chromatin.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(3):945&ndash;59; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26811354 26811354]; doi: [https://dx.doi.org/10.1074/mcp.M115.053553 10.1074/mcp.M115.053553]; GPMDB: [http://gpmdb.org/data/keyword/26811354 12].
-
#da Silva BF, Meng C, Helm D, Pachl F, Schiller J, Ibrahim E, Lynne CM, Brackett NL, Bertolla R, Kuster B,  (2016) &quot;Towards understanding male infertility after spinal cord injury using quantitative proteomics.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26814186 26814186]; doi: [https://dx.doi.org/10.1074/mcp.M115.052175 10.1074/mcp.M115.052175]; GPMDB: [http://gpmdb.org/data/keyword/26814186 504].
+
#da Silva BF, Meng C, Helm D, Pachl F, Schiller J, Ibrahim E, Lynne CM, Brackett NL, Bertolla RP, Kuster B,  (2016) &quot;Towards Understanding Male Infertility After Spinal Cord Injury Using Quantitative Proteomics.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(4):1424&ndash;34; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26814186 26814186]; doi: [https://dx.doi.org/10.1074/mcp.M115.052175 10.1074/mcp.M115.052175]; GPMDB: [http://gpmdb.org/data/keyword/26814186 504].
-
#Coman C, Solari FA, Hentschel A, Sickmann A, Zahedi RP, Ahrends R,  (2016) &quot;SIMPLEX: a combinatorial multimolecular omics approach for systems biology.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26814187 26814187]; doi: [https://dx.doi.org/10.1074/mcp.M115.053702 10.1074/mcp.M115.053702]; GPMDB: [http://gpmdb.org/data/keyword/26814187 68].
+
#Coman C, Solari FA, Hentschel A, Sickmann A, Zahedi RP, Ahrends R,  (2016) &quot;Simultaneous Metabolite, Protein, Lipid Extraction (SIMPLEX): A Combinatorial Multimolecular Omics Approach for Systems Biology.&quot; <i>Mol Cell Proteomics</i> <b>15</b>(4):1453&ndash;66; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26814187 26814187]; doi: [https://dx.doi.org/10.1074/mcp.M115.053702 10.1074/mcp.M115.053702]; GPMDB: [http://gpmdb.org/data/keyword/26814187 68].
#Bigaud E, Corrales FJ,  (2016) &quot;Methylthioadenosine regulates liver cells proteome and methylproteome. Implications in liver biology and disease.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26819315 26819315]; doi: [https://dx.doi.org/10.1074/mcp.M115.055772 10.1074/mcp.M115.055772]; GPMDB: [http://gpmdb.org/data/keyword/26819315 3].
#Bigaud E, Corrales FJ,  (2016) &quot;Methylthioadenosine regulates liver cells proteome and methylproteome. Implications in liver biology and disease.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26819315 26819315]; doi: [https://dx.doi.org/10.1074/mcp.M115.055772 10.1074/mcp.M115.055772]; GPMDB: [http://gpmdb.org/data/keyword/26819315 3].
#Kristensen TN, Kjeldal H, Schou MF, Nielsen JL,  (2016) &quot;Proteomic data reveal a physiological basis for costs and benefits associated with thermal acclimation.&quot; <i>J Exp Biol</i> <b>219</b>(Pt 7):969&ndash;76; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26823104 26823104]; doi: [https://dx.doi.org/10.1242/jeb.132696 10.1242/jeb.132696]; GPMDB: [http://gpmdb.org/data/keyword/26823104 9].
#Kristensen TN, Kjeldal H, Schou MF, Nielsen JL,  (2016) &quot;Proteomic data reveal a physiological basis for costs and benefits associated with thermal acclimation.&quot; <i>J Exp Biol</i> <b>219</b>(Pt 7):969&ndash;76; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26823104 26823104]; doi: [https://dx.doi.org/10.1242/jeb.132696 10.1242/jeb.132696]; GPMDB: [http://gpmdb.org/data/keyword/26823104 9].
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#Chen Z, Tran M, Tang M, Wang W, Gong Z, Chen J,  (2016) &quot;Proteomic Analysis Reveals a Novel MutS Partner Involved in Mismatch Repair Pathway.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26828036 26828036]; doi: [https://dx.doi.org/10.1074/mcp.M115.056093 10.1074/mcp.M115.056093]; GPMDB: [http://gpmdb.org/data/keyword/26828036 22].
#Chen Z, Tran M, Tang M, Wang W, Gong Z, Chen J,  (2016) &quot;Proteomic Analysis Reveals a Novel MutS Partner Involved in Mismatch Repair Pathway.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26828036 26828036]; doi: [https://dx.doi.org/10.1074/mcp.M115.056093 10.1074/mcp.M115.056093]; GPMDB: [http://gpmdb.org/data/keyword/26828036 22].
#Lichtman JS, Ferreyra JA, Ng KM, Smits SA, Sonnenburg JL, Elias JE,  (2016) &quot;Host-Microbiota Interactions in the Pathogenesis of Antibiotic-Associated Diseases.&quot; <i>Cell Rep</i> <b>14</b>(5):1049&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26832403 26832403]; doi: [https://dx.doi.org/10.1016/j.celrep.2016.01.009 10.1016/j.celrep.2016.01.009]; GPMDB: [http://gpmdb.org/data/keyword/26832403 486].
#Lichtman JS, Ferreyra JA, Ng KM, Smits SA, Sonnenburg JL, Elias JE,  (2016) &quot;Host-Microbiota Interactions in the Pathogenesis of Antibiotic-Associated Diseases.&quot; <i>Cell Rep</i> <b>14</b>(5):1049&ndash;61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26832403 26832403]; doi: [https://dx.doi.org/10.1016/j.celrep.2016.01.009 10.1016/j.celrep.2016.01.009]; GPMDB: [http://gpmdb.org/data/keyword/26832403 486].
 +
#Lechman ER, Gentner B, Ng SW, Schoof EM, van Galen P, Kennedy JA, Nucera S, Ciceri F, Kaufmann KB, Takayama N, Dobson SM, Trotman-Grant A, Krivdova G, Elzinga J, Mitchell A, Nilsson B, Hermans KG, Eppert K, Marke R, Isserlin R, Voisin V, Bader GD, Zandstra PW, Golub TR, Ebert BL, Lu J, Minden M, Wang JC, Naldini L, Dick JE,  (2016) &quot;miR-126 Regulates Distinct Self-Renewal Outcomes in Normal and Malignant Hematopoietic Stem Cells.&quot; <i>Cancer Cell</i> <b>29</b>(2):214&ndash;28; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26832662 26832662]; doi: [https://dx.doi.org/10.1016/j.ccell.2015.12.011 10.1016/j.ccell.2015.12.011]; GPMDB: [http://gpmdb.org/data/keyword/26832662 70].
#Horton ER, Humphries JD, Stutchbury B, Jacquemet G, Ballestrem C, Barry ST, Humphries MJ,  (2016) &quot;Modulation of FAK and Src adhesion signaling occurs independently of adhesion complex composition.&quot; <i>J Cell Biol</i> <b>212</b>(3):349&ndash;64; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26833789 26833789]; doi: [https://dx.doi.org/10.1083/jcb.201508080 10.1083/jcb.201508080]; GPMDB: [http://gpmdb.org/data/keyword/26833789 9].
#Horton ER, Humphries JD, Stutchbury B, Jacquemet G, Ballestrem C, Barry ST, Humphries MJ,  (2016) &quot;Modulation of FAK and Src adhesion signaling occurs independently of adhesion complex composition.&quot; <i>J Cell Biol</i> <b>212</b>(3):349&ndash;64; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26833789 26833789]; doi: [https://dx.doi.org/10.1083/jcb.201508080 10.1083/jcb.201508080]; GPMDB: [http://gpmdb.org/data/keyword/26833789 9].
-
#Zhang P, Kirby D, Dufresne C, Chen Y, Turner R, Ferri S, Edward DP, Van Eyk JE, Semba RD,  (2016) &quot;Defining the proteome of human iris, ciliary body, retinal pigment epithelium, and choroid.&quot; <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26834087 26834087]; doi: [https://dx.doi.org/10.1002/pmic.201500188 10.1002/pmic.201500188]; GPMDB: [http://gpmdb.org/data/keyword/26834087 120].
+
#Zhang P, Kirby D, Dufresne C, Chen Y, Turner R, Ferri S, Edward DP, Van Eyk JE, Semba RD,  (2016) &quot;Defining the proteome of human iris, ciliary body, retinal pigment epithelium, and choroid.&quot; <i>Proteomics</i> <b>16</b>(7):1146&ndash;53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26834087 26834087]; doi: [https://dx.doi.org/10.1002/pmic.201500188 10.1002/pmic.201500188]; GPMDB: [http://gpmdb.org/data/keyword/26834087 120].
-
#Long B, Muhamad R, Yan G, Yu J, Fan Q, Wang Z, Li X, Purnomoadi A, Achmadi J, Yan X,  (2016) &quot;Quantitative proteomics analysis reveals glutamine deprivation activates fatty acid β-oxidation pathway in HepG2 cells.&quot; <i>Amino Acids</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26837383 26837383]; doi: [https://dx.doi.org/10.1007/s00726-016-2182-7 10.1007/s00726-016-2182-7]; GPMDB: [http://gpmdb.org/data/keyword/26837383 1].
+
#Long B, Muhamad R, Yan G, Yu J, Fan Q, Wang Z, Li X, Purnomoadi A, Achmadi J, Yan X,  (2016) &quot;Quantitative proteomics analysis reveals glutamine deprivation activates fatty acid β-oxidation pathway in HepG2 cells.&quot; <i>Amino Acids</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26837383 26837383]; doi: [https://dx.doi.org/10.1007/s00726-016-2182-7 10.1007/s00726-016-2182-7]; GPMDB: [http://gpmdb.org/data/keyword/26837383 1].
-
#Iwamoto N, D'Alessandro LA, Depner S, Hahn B, Kramer BA, Lucarelli P, Vlasov A, Stepath M, Böhm ME, Deharde D, Damm G, Seehofer D, Lehmann WD, Klingmüller U, Schilling M,  (2016) &quot;Context-specific flow through the MEK/ERK module produces cell- and ligand-specific patterns of ERK single and double phosphorylation.&quot; <i>Sci Signal</i> <b>9</b>(413):ra13; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26838549 26838549]; doi: [https://dx.doi.org/10.1126/scisignal.aab1967 10.1126/scisignal.aab1967]; GPMDB: [http://gpmdb.org/data/keyword/26838549 66].
+
#Iwamoto N, D'Alessandro LA, Depner S, Hahn B, Kramer BA, Lucarelli P, Vlasov A, Stepath M, Böhm ME, Deharde D, Damm G, Seehofer D, Lehmann WD, Klingmüller U, Schilling M,  (2016) &quot;Context-specific flow through the MEK/ERK module produces cell- and ligand-specific patterns of ERK single and double phosphorylation.&quot; <i>Sci Signal</i> <b>9</b>(413):ra13; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26838549 26838549]; doi: [https://dx.doi.org/10.1126/scisignal.aab1967 10.1126/scisignal.aab1967]; GPMDB: [http://gpmdb.org/data/keyword/26838549 66].
#Huang H, Yoo CY, Bindbeutel R, Goldsworthy J, Tielking A, Alvarez S, Naldrett MJ, Evans BS, Chen M, Nusinow DA,  (2016) &quot;PCH1 integrates circadian and light-signaling pathways to control photoperiod-responsive growth in Arabidopsis.&quot; <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26839287 26839287]; doi: [https://dx.doi.org/10.7554/eLife.13292 10.7554/eLife.13292]; GPMDB: [http://gpmdb.org/data/keyword/26839287 9].
#Huang H, Yoo CY, Bindbeutel R, Goldsworthy J, Tielking A, Alvarez S, Naldrett MJ, Evans BS, Chen M, Nusinow DA,  (2016) &quot;PCH1 integrates circadian and light-signaling pathways to control photoperiod-responsive growth in Arabidopsis.&quot; <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26839287 26839287]; doi: [https://dx.doi.org/10.7554/eLife.13292 10.7554/eLife.13292]; GPMDB: [http://gpmdb.org/data/keyword/26839287 9].
#Thorpe CT, Peffers MJ, Simpson D, Halliwell E, Screen HR, Clegg PD,  (2016) &quot;Anatomical heterogeneity of tendon: Fascicular and interfascicular tendon compartments have distinct proteomic composition.&quot; <i>Sci Rep</i> <b>6</b>:20455; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26842662 26842662]; doi: [https://dx.doi.org/10.1038/srep20455 10.1038/srep20455]; GPMDB: [http://gpmdb.org/data/keyword/26842662 20].
#Thorpe CT, Peffers MJ, Simpson D, Halliwell E, Screen HR, Clegg PD,  (2016) &quot;Anatomical heterogeneity of tendon: Fascicular and interfascicular tendon compartments have distinct proteomic composition.&quot; <i>Sci Rep</i> <b>6</b>:20455; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26842662 26842662]; doi: [https://dx.doi.org/10.1038/srep20455 10.1038/srep20455]; GPMDB: [http://gpmdb.org/data/keyword/26842662 20].
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#Peffers MJ, Collins J, Fang Y, Goljanek-Whysall K, Rushton M, Loughlin J, Proctor C, Clegg PD,  (2016) &quot;Age-related changes in mesenchymal stem cells identified using a multi-omics approach.&quot; <i>Eur Cell Mater</i> <b>31</b>:136&ndash;59; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26853623 26853623]; GPMDB: [http://gpmdb.org/data/keyword/26853623 8].
#Peffers MJ, Collins J, Fang Y, Goljanek-Whysall K, Rushton M, Loughlin J, Proctor C, Clegg PD,  (2016) &quot;Age-related changes in mesenchymal stem cells identified using a multi-omics approach.&quot; <i>Eur Cell Mater</i> <b>31</b>:136&ndash;59; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26853623 26853623]; GPMDB: [http://gpmdb.org/data/keyword/26853623 8].
#Billing AM, Ben Hamidane H, Dib SS, Cotton RJ, Bhagwat AM, Kumar P, Hayat S, Yousri NA, Goswami N, Suhre K, Rafii A, Graumann J,  (2016) &quot;Comprehensive transcriptomic and proteomic characterization of human mesenchymal stem cells reveals source specific cellular markers.&quot; <i>Sci Rep</i> <b>6</b>:21507; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26857143 26857143]; doi: [https://dx.doi.org/10.1038/srep21507 10.1038/srep21507]; GPMDB: [http://gpmdb.org/data/keyword/26857143 9].
#Billing AM, Ben Hamidane H, Dib SS, Cotton RJ, Bhagwat AM, Kumar P, Hayat S, Yousri NA, Goswami N, Suhre K, Rafii A, Graumann J,  (2016) &quot;Comprehensive transcriptomic and proteomic characterization of human mesenchymal stem cells reveals source specific cellular markers.&quot; <i>Sci Rep</i> <b>6</b>:21507; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26857143 26857143]; doi: [https://dx.doi.org/10.1038/srep21507 10.1038/srep21507]; GPMDB: [http://gpmdb.org/data/keyword/26857143 9].
-
#Kowal J, Arras G, Colombo M, Jouve M, Morath JP, Primdal-Bengtson B, Dingli F, Loew D, Tkach M, Théry C,  (2016) &quot;Proteomic comparison defines novel markers to characterize heterogeneous populations of extracellular vesicle subtypes.&quot; <i>Proc Natl Acad Sci U S A</i> <b>113</b>(8):E968&ndash;77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26858453 26858453]; doi: [https://dx.doi.org/10.1073/pnas.1521230113 10.1073/pnas.1521230113]; GPMDB: [http://gpmdb.org/data/keyword/26858453 56].
+
#Kowal J, Arras G, Colombo M, Jouve M, Morath JP, Primdal-Bengtson B, Dingli F, Loew D, Tkach M, Théry C,  (2016) &quot;Proteomic comparison defines novel markers to characterize heterogeneous populations of extracellular vesicle subtypes.&quot; <i>Proc Natl Acad Sci U S A</i> <b>113</b>(8):E968&ndash;77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26858453 26858453]; doi: [https://dx.doi.org/10.1073/pnas.1521230113 10.1073/pnas.1521230113]; GPMDB: [http://gpmdb.org/data/keyword/26858453 56].
-
#Locard-Paulet M, Lim L, Veluscek G, McMahon K, Sinclair J, van Weverwijk A, Worboys JD, Yuan Y, Isacke CM, Jørgensen C,  (2016) &quot;Phosphoproteomic analysis of interacting tumor and endothelial cells identifies regulatory mechanisms of transendothelial migration.&quot; <i>Sci Signal</i> <b>9</b>(414):ra15; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26861043 26861043]; doi: [https://dx.doi.org/10.1126/scisignal.aac5820 10.1126/scisignal.aac5820]; GPMDB: [http://gpmdb.org/data/keyword/26861043 76].
+
#Locard-Paulet M, Lim L, Veluscek G, McMahon K, Sinclair J, van Weverwijk A, Worboys JD, Yuan Y, Isacke CM, Jørgensen C,  (2016) &quot;Phosphoproteomic analysis of interacting tumor and endothelial cells identifies regulatory mechanisms of transendothelial migration.&quot; <i>Sci Signal</i> <b>9</b>(414):ra15; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26861043 26861043]; doi: [https://dx.doi.org/10.1126/scisignal.aac5820 10.1126/scisignal.aac5820]; GPMDB: [http://gpmdb.org/data/keyword/26861043 76].
-
#Prior KK, Wittig I, Leisegang MS, Groenendyk J, Weissmann N, Michalak M, Jansen-Dürr P, Shah AM, Brandes RP,  (2016) &quot;The Endoplasmic Reticulum Chaperone Calnexin Is a NADPH Oxidase NOX4 Interacting Protein.&quot; <i>J Biol Chem</i> <b>291</b>(13):7045&ndash;59; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26861875 26861875]; doi: [https://dx.doi.org/10.1074/jbc.M115.710772 10.1074/jbc.M115.710772]; GPMDB: [http://gpmdb.org/data/keyword/26861875 80].
+
#Prior KK, Wittig I, Leisegang MS, Groenendyk J, Weissmann N, Michalak M, Jansen-Dürr P, Shah AM, Brandes RP,  (2016) &quot;The Endoplasmic Reticulum Chaperone Calnexin Is a NADPH Oxidase NOX4 Interacting Protein.&quot; <i>J Biol Chem</i> <b>291</b>(13):7045&ndash;59; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26861875 26861875]; doi: [https://dx.doi.org/10.1074/jbc.M115.710772 10.1074/jbc.M115.710772]; GPMDB: [http://gpmdb.org/data/keyword/26861875 80].
-
#Lamberti Y, Cafiero JH, Surmann K, Valdez H, Holubova J, Večerek B, Sebo P, Schmidt F, Völker U, Rodriguez ME,  (2016) &quot;Proteome analysis of Bordetella pertussis isolated from human macrophages.&quot; <i>J Proteomics</i> <b>136</b>:55&ndash;67; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26873878 26873878]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.02.002 10.1016/j.jprot.2016.02.002]; GPMDB: [http://gpmdb.org/data/keyword/26873878 9].
+
#Lamberti Y, Cafiero JH, Surmann K, Valdez H, Holubova J, Večerek B, Sebo P, Schmidt F, Völker U, Rodriguez ME,  (2016) &quot;Proteome analysis of Bordetella pertussis isolated from human macrophages.&quot; <i>J Proteomics</i> <b>136</b>:55&ndash;67; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26873878 26873878]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.02.002 10.1016/j.jprot.2016.02.002]; GPMDB: [http://gpmdb.org/data/keyword/26873878 9].
-
#Knöppel A, Näsvall J, Andersson DI,  (2016) &quot;Compensating the Fitness Costs of Synonymous Mutations.&quot; <i>Mol Biol Evol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26882986 26882986]; doi: [https://dx.doi.org/10.1093/molbev/msw028 10.1093/molbev/msw028]; GPMDB: [http://gpmdb.org/data/keyword/26882986 72].
+
#Knöppel A, Näsvall J, Andersson DI,  (2016) &quot;Compensating the Fitness Costs of Synonymous Mutations.&quot; <i>Mol Biol Evol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26882986 26882986]; doi: [https://dx.doi.org/10.1093/molbev/msw028 10.1093/molbev/msw028]; GPMDB: [http://gpmdb.org/data/keyword/26882986 72].
-
#Creedon H, Gómez-Cuadrado L, Tarnauskaitė Ž, Balla J, Canel M, MacLeod KG, Serrels B, Fraser C, Unciti-Broceta A, Tracey N, Le Bihan T, Klinowska T, Sims AH, Byron A, Brunton VG,  (2016) &quot;Identification of novel pathways linking epithelial-to-mesenchymal transition with resistance to HER2-targeted therapy.&quot; <i>Oncotarget</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26883193 26883193]; doi: [https://dx.doi.org/10.18632/oncotarget.7317 10.18632/oncotarget.7317]; GPMDB: [http://gpmdb.org/data/keyword/26883193 6].
+
#Creedon H, Gómez-Cuadrado L, TarnauskaitÄ— Ž, Balla J, Canel M, MacLeod KG, Serrels B, Fraser C, Unciti-Broceta A, Tracey N, Le Bihan T, Klinowska T, Sims AH, Byron A, Brunton VG,  (2016) &quot;Identification of novel pathways linking epithelial-to-mesenchymal transition with resistance to HER2-targeted therapy.&quot; <i>Oncotarget</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26883193 26883193]; doi: [https://dx.doi.org/10.18632/oncotarget.7317 10.18632/oncotarget.7317]; GPMDB: [http://gpmdb.org/data/keyword/26883193 6].
#Zufferey A, Ibberson M, Reny JL, Nolli S, Schvartz D, Docquier M, Xenarios I, Sanchez JC, Fontana P,  (2016) &quot;New molecular insights into modulation of platelet reactivity in aspirin-treated patients using a network-based approach.&quot; <i>Hum Genet</i> <b>135</b>(4):403&ndash;14; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26883867 26883867]; doi: [https://dx.doi.org/10.1007/s00439-016-1642-1 10.1007/s00439-016-1642-1]; GPMDB: [http://gpmdb.org/data/keyword/26883867 13].
#Zufferey A, Ibberson M, Reny JL, Nolli S, Schvartz D, Docquier M, Xenarios I, Sanchez JC, Fontana P,  (2016) &quot;New molecular insights into modulation of platelet reactivity in aspirin-treated patients using a network-based approach.&quot; <i>Hum Genet</i> <b>135</b>(4):403&ndash;14; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26883867 26883867]; doi: [https://dx.doi.org/10.1007/s00439-016-1642-1 10.1007/s00439-016-1642-1]; GPMDB: [http://gpmdb.org/data/keyword/26883867 13].
#Huebner AR, Cheng L, Somparn P, Knepper MA, Fenton RA, Pisitkun T,  (2016) &quot;Deubiquitylation of protein cargo is not an essential step in exosome formation.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26884507 26884507]; doi: [https://dx.doi.org/10.1074/mcp.M115.054965 10.1074/mcp.M115.054965]; GPMDB: [http://gpmdb.org/data/keyword/26884507 64].
#Huebner AR, Cheng L, Somparn P, Knepper MA, Fenton RA, Pisitkun T,  (2016) &quot;Deubiquitylation of protein cargo is not an essential step in exosome formation.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26884507 26884507]; doi: [https://dx.doi.org/10.1074/mcp.M115.054965 10.1074/mcp.M115.054965]; GPMDB: [http://gpmdb.org/data/keyword/26884507 64].
-
#Ramallo Guevara C, Philipp O, Hamann A, Werner A, Osiewacz H, Rexroth S, Rögner M, Poetsch A,  (2016) &quot;Global protein oxidation profiling suggests efficient mitochondrial proteome homeostasis during ageing.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26884511 26884511]; doi: [https://dx.doi.org/10.1074/mcp.M115.055616 10.1074/mcp.M115.055616]; GPMDB: [http://gpmdb.org/data/keyword/26884511 17].
+
#Ramallo Guevara C, Philipp O, Hamann A, Werner A, Osiewacz H, Rexroth S, Rögner M, Poetsch A,  (2016) &quot;Global protein oxidation profiling suggests efficient mitochondrial proteome homeostasis during ageing.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26884511 26884511]; doi: [https://dx.doi.org/10.1074/mcp.M115.055616 10.1074/mcp.M115.055616]; GPMDB: [http://gpmdb.org/data/keyword/26884511 17].
#Lee HL, Chiang IC, Liang SY, Lee DY, Chang GD, Wang KY, Lin SY, Shih YL,  (2016) &quot;Quantitative proteomics analysis reveals the Min system of Escherichia coli modulates reversible protein association with the inner membrane.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26889046 26889046]; doi: [https://dx.doi.org/10.1074/mcp.M115.053603 10.1074/mcp.M115.053603]; GPMDB: [http://gpmdb.org/data/keyword/26889046 4].
#Lee HL, Chiang IC, Liang SY, Lee DY, Chang GD, Wang KY, Lin SY, Shih YL,  (2016) &quot;Quantitative proteomics analysis reveals the Min system of Escherichia coli modulates reversible protein association with the inner membrane.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26889046 26889046]; doi: [https://dx.doi.org/10.1074/mcp.M115.053603 10.1074/mcp.M115.053603]; GPMDB: [http://gpmdb.org/data/keyword/26889046 4].
#Sieber J, Hauer C, Bhuvanagiri M, Leicht S, Krijgsveld J, Neu-Yilik G, Hentze MW, Kulozik AE,  (2016) &quot;Proteomic analysis reveals branch-specific regulation of the unfolded protein response by nonsense-mediated mRNA decay.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26896796 26896796]; doi: [https://dx.doi.org/10.1074/mcp.M115.054056 10.1074/mcp.M115.054056]; GPMDB: [http://gpmdb.org/data/keyword/26896796 4].
#Sieber J, Hauer C, Bhuvanagiri M, Leicht S, Krijgsveld J, Neu-Yilik G, Hentze MW, Kulozik AE,  (2016) &quot;Proteomic analysis reveals branch-specific regulation of the unfolded protein response by nonsense-mediated mRNA decay.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26896796 26896796]; doi: [https://dx.doi.org/10.1074/mcp.M115.054056 10.1074/mcp.M115.054056]; GPMDB: [http://gpmdb.org/data/keyword/26896796 4].
#Zilkenat S, Franz-Wachtel M, Stierhof YD, Galan JE, Macek B, Wagner S,  (2016) &quot;Determination of the stoichiometry of the complete bacterial type III secretion needle complex using a combined quantitative proteomic approach.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26900162 26900162]; doi: [https://dx.doi.org/10.1074/mcp.M115.056598 10.1074/mcp.M115.056598]; GPMDB: [http://gpmdb.org/data/keyword/26900162 18].
#Zilkenat S, Franz-Wachtel M, Stierhof YD, Galan JE, Macek B, Wagner S,  (2016) &quot;Determination of the stoichiometry of the complete bacterial type III secretion needle complex using a combined quantitative proteomic approach.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26900162 26900162]; doi: [https://dx.doi.org/10.1074/mcp.M115.056598 10.1074/mcp.M115.056598]; GPMDB: [http://gpmdb.org/data/keyword/26900162 18].
-
#Zhao L, Chen Y, Bajaj AO, Eblimit A, Xu M, Soens ZT, Wang F, Ge Z, Jung SY, He F, Li Y, Wensel TG, Qin J, Chen R,  (2016) &quot;Integrative subcellular proteomic analysis allows accurate prediction of human disease causing genes.&quot; <i>Genome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26912414 26912414]; doi: [https://dx.doi.org/10.1101/gr.198911.115 10.1101/gr.198911.115]; GPMDB: [http://gpmdb.org/data/keyword/26912414 26].
+
#Zhao L, Chen Y, Bajaj AO, Eblimit A, Xu M, Soens ZT, Wang F, Ge Z, Jung SY, He F, Li Y, Wensel TG, Qin J, Chen R,  (2016) &quot;Integrative subcellular proteomic analysis allows accurate prediction of human disease-causing genes.&quot; <i>Genome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26912414 26912414]; doi: [https://dx.doi.org/10.1101/gr.198911.115 10.1101/gr.198911.115]; GPMDB: [http://gpmdb.org/data/keyword/26912414 26].
#Chen JX, Cipriani PG, Mecenas D, Polanowska J, Piano F, Gunsalus KC, Selbach M,  (2016) &quot;In vivo interaction proteomics in C. elegans embryos provides new insights into P granule dynamics.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26912668 26912668]; doi: [https://dx.doi.org/10.1074/mcp.M115.053975 10.1074/mcp.M115.053975]; GPMDB: [http://gpmdb.org/data/keyword/26912668 66].
#Chen JX, Cipriani PG, Mecenas D, Polanowska J, Piano F, Gunsalus KC, Selbach M,  (2016) &quot;In vivo interaction proteomics in C. elegans embryos provides new insights into P granule dynamics.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26912668 26912668]; doi: [https://dx.doi.org/10.1074/mcp.M115.053975 10.1074/mcp.M115.053975]; GPMDB: [http://gpmdb.org/data/keyword/26912668 66].
#Mostafa I, Zhu N, Yoo MJ, Balmant KM, Misra BB, Dufresne C, Abou-Hashem M, Chen S, El-Domiaty M,  (2016) &quot;New nodes and edges in the glucosinolate molecular network revealed by proteomics and metabolomics of Arabidopsis myb28/29 and cyp79B2/B3 glucosinolate mutants.&quot; <i>J Proteomics</i> <b>138</b>:1&ndash;19; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26915584 26915584]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.02.012 10.1016/j.jprot.2016.02.012]; GPMDB: [http://gpmdb.org/data/keyword/26915584 24].
#Mostafa I, Zhu N, Yoo MJ, Balmant KM, Misra BB, Dufresne C, Abou-Hashem M, Chen S, El-Domiaty M,  (2016) &quot;New nodes and edges in the glucosinolate molecular network revealed by proteomics and metabolomics of Arabidopsis myb28/29 and cyp79B2/B3 glucosinolate mutants.&quot; <i>J Proteomics</i> <b>138</b>:1&ndash;19; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26915584 26915584]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.02.012 10.1016/j.jprot.2016.02.012]; GPMDB: [http://gpmdb.org/data/keyword/26915584 24].
-
#de Torre-Minguela C, Barberà-Cremades M, Gómez AI, Martín-Sánchez F, Pelegrín P,  (2016) &quot;Macrophage activation and polarization modify P2X7 receptor secretome influencing the inflammatory process.&quot; <i>Sci Rep</i> <b>6</b>:22586; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26935289 26935289]; doi: [https://dx.doi.org/10.1038/srep22586 10.1038/srep22586]; GPMDB: [http://gpmdb.org/data/keyword/26935289 118].
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#de Torre-Minguela C, Barberà -Cremades M, Gómez AI, Martín-Sánchez F, Pelegrín P,  (2016) &quot;Macrophage activation and polarization modify P2X7 receptor secretome influencing the inflammatory process.&quot; <i>Sci Rep</i> <b>6</b>:22586; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26935289 26935289]; doi: [https://dx.doi.org/10.1038/srep22586 10.1038/srep22586]; GPMDB: [http://gpmdb.org/data/keyword/26935289 118].
#Salih M, Demmers JA, Bezstarosti K, Leonhard WN, Losekoot M, van Kooten C, Gansevoort RT, Peters DJ, Zietse R, Hoorn EJ, DIPAK Consortium,  (2016) &quot;Proteomics of Urinary Vesicles Links Plakins and Complement to Polycystic Kidney Disease.&quot; <i>J Am Soc Nephrol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26940098 26940098]; doi: [https://dx.doi.org/10.1681/ASN.2015090994 10.1681/ASN.2015090994]; GPMDB: [http://gpmdb.org/data/keyword/26940098 7].
#Salih M, Demmers JA, Bezstarosti K, Leonhard WN, Losekoot M, van Kooten C, Gansevoort RT, Peters DJ, Zietse R, Hoorn EJ, DIPAK Consortium,  (2016) &quot;Proteomics of Urinary Vesicles Links Plakins and Complement to Polycystic Kidney Disease.&quot; <i>J Am Soc Nephrol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26940098 26940098]; doi: [https://dx.doi.org/10.1681/ASN.2015090994 10.1681/ASN.2015090994]; GPMDB: [http://gpmdb.org/data/keyword/26940098 7].
#Kamkina P, Snoek LB, Grossmann J, Volkers RJ, Sterken MG, Daube M, Roschitzki B, Fortes C, Schlapbach R, Roth A, von Mering C, Hengartner MO, Schrimpf SP, Kammenga JE,  (2016) &quot;Natural genetic variation differentially affects the proteome and transcriptome in C. elegans.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26944343 26944343]; doi: [https://dx.doi.org/10.1074/mcp.M115.052548 10.1074/mcp.M115.052548]; GPMDB: [http://gpmdb.org/data/keyword/26944343 12].
#Kamkina P, Snoek LB, Grossmann J, Volkers RJ, Sterken MG, Daube M, Roschitzki B, Fortes C, Schlapbach R, Roth A, von Mering C, Hengartner MO, Schrimpf SP, Kammenga JE,  (2016) &quot;Natural genetic variation differentially affects the proteome and transcriptome in C. elegans.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26944343 26944343]; doi: [https://dx.doi.org/10.1074/mcp.M115.052548 10.1074/mcp.M115.052548]; GPMDB: [http://gpmdb.org/data/keyword/26944343 12].
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#Adewole OO, Erhabor GE, Adewole TO, Ojo AO, Harriet O, Wolfe LM, Prenni JE,  (2016) &quot;Proteomic profiling of Eccrine sweat reveals its potential as a diagnostic biofluid for active tuberculosis.&quot; <i>Proteomics Clin Appl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26948146 26948146]; doi: [https://dx.doi.org/10.1002/prca.201500071 10.1002/prca.201500071]; GPMDB: [http://gpmdb.org/data/keyword/26948146 10].
#Adewole OO, Erhabor GE, Adewole TO, Ojo AO, Harriet O, Wolfe LM, Prenni JE,  (2016) &quot;Proteomic profiling of Eccrine sweat reveals its potential as a diagnostic biofluid for active tuberculosis.&quot; <i>Proteomics Clin Appl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26948146 26948146]; doi: [https://dx.doi.org/10.1002/prca.201500071 10.1002/prca.201500071]; GPMDB: [http://gpmdb.org/data/keyword/26948146 10].
#Lai ZW, Bolm L, Fuellgraf H, Biniossek ML, Makowiec F, Hopt UT, Werner M, Keck T, Bausch D, Sorio C, Scarpa A, Schilling O, Bronsert P, Wellner UF,  (2016) &quot;Characterization of various cell lines from different ampullary cancer subtypes and cancer associated fibroblast-mediated responses.&quot; <i>BMC Cancer</i> <b>16</b>(1):195; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26951071 26951071]; doi: [https://dx.doi.org/10.1186/s12885-016-2193-5 10.1186/s12885-016-2193-5]; GPMDB: [http://gpmdb.org/data/keyword/26951071 5].
#Lai ZW, Bolm L, Fuellgraf H, Biniossek ML, Makowiec F, Hopt UT, Werner M, Keck T, Bausch D, Sorio C, Scarpa A, Schilling O, Bronsert P, Wellner UF,  (2016) &quot;Characterization of various cell lines from different ampullary cancer subtypes and cancer associated fibroblast-mediated responses.&quot; <i>BMC Cancer</i> <b>16</b>(1):195; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26951071 26951071]; doi: [https://dx.doi.org/10.1186/s12885-016-2193-5 10.1186/s12885-016-2193-5]; GPMDB: [http://gpmdb.org/data/keyword/26951071 5].
-
#Bonn F, Pané-Farré J, Schlüter R, Schaffer M, Fuchs S, Bernhardt J, Riedel K, Otto A, Völker U, van Dijl JM, Hecker M, Mäder U, Becher D,  (2016) &quot;Global analysis of the impact of linezolid onto virulence factor production in S. aureus USA300.&quot; <i>Int J Med Microbiol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26996810 26996810]; doi: [https://dx.doi.org/10.1016/j.ijmm.2016.02.004 10.1016/j.ijmm.2016.02.004]; GPMDB: [http://gpmdb.org/data/keyword/26996810 300].
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#De Marchi T, Kuhn E, Dekker LJ, Stingl C, Braakman RB, Opdam M, Linn SC, Sweep FC, Span PN, Luider TM, Foekens JA, Martens JW, Carr SA, Umar A,  (2016) &quot;Targeted MS Assay Predicting Tamoxifen Resistance in Estrogen-Receptor-Positive Breast Cancer Tissues and Sera.&quot; <i>J Proteome Res</i> <b>15</b>(4):1230&ndash;42; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26958999 26958999]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b01119 10.1021/acs.jproteome.5b01119]; GPMDB: [http://gpmdb.org/data/keyword/26958999 78].
 +
#Jo DH, Bae J, Chae S, Kim JH, Han JH, Hwang D, Lee SW, Kim JH,  (2016) &quot;Quantitative proteomics reveals β2 integrin-mediated cytoskeletal rearrangement in VEGF-induced retinal vascular hyperpermeability.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26969716 26969716]; doi: [https://dx.doi.org/10.1074/mcp.M115.053249 10.1074/mcp.M115.053249]; GPMDB: [http://gpmdb.org/data/keyword/26969716 35].
 +
#Bonn F, Pané-Farré J, Schlüter R, Schaffer M, Fuchs S, Bernhardt J, Riedel K, Otto A, Völker U, van Dijl JM, Hecker M, Mäder U, Becher D,  (2016) &quot;Global analysis of the impact of linezolid onto virulence factor production in S. aureus USA300.&quot; <i>Int J Med Microbiol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26996810 26996810]; doi: [https://dx.doi.org/10.1016/j.ijmm.2016.02.004 10.1016/j.ijmm.2016.02.004]; GPMDB: [http://gpmdb.org/data/keyword/26996810 300].
#He JJ, Ma J, Elsheikha HM, Song HQ, Zhou DH, Zhu XQ,  (2016) &quot;Proteomic Profiling of Mouse Liver following Acute Toxoplasma gondii Infection.&quot; <i>PLoS One</i> <b>11</b>(3):e0152022; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27003162 27003162]; doi: [https://dx.doi.org/10.1371/journal.pone.0152022 10.1371/journal.pone.0152022]; GPMDB: [http://gpmdb.org/data/keyword/27003162 1].
#He JJ, Ma J, Elsheikha HM, Song HQ, Zhou DH, Zhu XQ,  (2016) &quot;Proteomic Profiling of Mouse Liver following Acute Toxoplasma gondii Infection.&quot; <i>PLoS One</i> <b>11</b>(3):e0152022; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27003162 27003162]; doi: [https://dx.doi.org/10.1371/journal.pone.0152022 10.1371/journal.pone.0152022]; GPMDB: [http://gpmdb.org/data/keyword/27003162 1].
#Wilkerson EM, Johansson MW, Hebert AS, Westphall MS, Mathur SK, Jarjour NN, Schwantes EA, Mosher DF, Coon JJ,  (2016) &quot;The Peripheral Blood Eosinophil Proteome.&quot; <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27005946 27005946]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00006 10.1021/acs.jproteome.6b00006]; GPMDB: [http://gpmdb.org/data/keyword/27005946 45].
#Wilkerson EM, Johansson MW, Hebert AS, Westphall MS, Mathur SK, Jarjour NN, Schwantes EA, Mosher DF, Coon JJ,  (2016) &quot;The Peripheral Blood Eosinophil Proteome.&quot; <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27005946 27005946]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00006 10.1021/acs.jproteome.6b00006]; GPMDB: [http://gpmdb.org/data/keyword/27005946 45].
-
#Lawrence RT, Searle BC, Llovet A, Villén J,  (2016) &quot;Plug-and-play analysis of the human phosphoproteome by targeted high-resolution mass spectrometry.&quot; <i>Nat Methods</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27018578 27018578]; doi: [https://dx.doi.org/10.1038/nmeth.3811 10.1038/nmeth.3811]; GPMDB: [http://gpmdb.org/data/keyword/27018578 6].
+
#Wilson MC, Trakarnsanga K, Heesom KJ, Cogan N, Green C, Toye AM, Parsons SF, Ansteee DJ, Frayne J,  (2016) &quot;Comparison of the proteome of adult and cord erythroid cells, and changes in the proteome following reticulocyte maturation.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27006477 27006477]; doi: [https://dx.doi.org/10.1074/mcp.M115.057315 10.1074/mcp.M115.057315]; GPMDB: [http://gpmdb.org/data/keyword/27006477 2].
 +
#Lawrence RT, Searle BC, Llovet A, Villén J,  (2016) &quot;Plug-and-play analysis of the human phosphoproteome by targeted high-resolution mass spectrometry.&quot; <i>Nat Methods</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27018578 27018578]; doi: [https://dx.doi.org/10.1038/nmeth.3811 10.1038/nmeth.3811]; GPMDB: [http://gpmdb.org/data/keyword/27018578 6].
 +
#Slany A, Bileck A, Kreutz D, Mayer RL, Muqaku B, Gerner C,  (2016) &quot;Contribution of human fibroblasts and endothelial cells to the Hallmarks of Inflammation as determined by proteome profiling.&quot; <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27025457 27025457]; doi: [https://dx.doi.org/10.1074/mcp.M116.058099 10.1074/mcp.M116.058099]; GPMDB: [http://gpmdb.org/data/keyword/27025457 34].

Revision as of 12:52, 10 April 2016

GPMDB was originally constructed to serve as a reference work for all publicly available proteomics generated using tandem mass spectrometry. Public data is downloaded and reanalyzed using the current version of X! Tandem. The result files generated by the reanalysis and the relevant metadata are imported into the database and made available through the associated web site, ftp site and REST interfaces.

Contents

Current Public Data Sources

The following public data repositories are checked daily for new suitable raw data for reanalysis:

  1. ProteomeXchange/PRIDE;
  2. MASSIVE;
  3. PeptideAtlas/PASSEL;
  4. ProteomicsDB;
  5. The Chorus Project; and
  6. iProX.

Data made available from specific large projects, such as CPTAC or the Human Proteome Atlas, are also included when they are made available. Every effort is made so that reanalyzed results from all data sources are made available within 48 hours of their being released. In addition, data from lab web sites, ftp sites and direct contributions through the GPM sites made available to researchers are imported into GPMDB as part of a daily incremental update process.

Previous Data Sources

GPMDB has been in operation since Jan. 1, 2004. Several large data source repositories have come into existence and ceased activity in the period since that time. All of the data from those repositories (e.g., TRANCHE, Peptidome) were reanalyzed and stored in GPMDB and they are still available even though the source repository sites are no longer active.

Review process

Simply because data is made available does not mean that it will be included in GPMDB. The data must pass our internal automated quality control tests for its initial acceptance and it may be rejected subsequently because of either quality or originality concerns.

Data from publications

The following is a data sets with associated PubMed IDs that have supplied data to the GPMDB Project through the data sources mentioned above. The list was current, as of April 10, 2016.

  1. Lipton MS, Pasa-Tolic' L, Anderson GA, Anderson DJ, Auberry DL, Battista JR, Daly MJ, Fredrickson J, Hixson KK, Kostandarithes H, Masselon C, Markillie LM, Moore RJ, Romine MF, Shen Y, Stritmatter E, Tolic' N, Udseth HR, Venkateswaran A, Wong KK, Zhao R, Smith RD, (2002) "Global analysis of the Deinococcus radiodurans proteome by using accurate mass tags." Proc Natl Acad Sci U S A 99(17):11049–54; PMID: 12177431; doi: 10.1073/pnas.172170199; GPMDB: 498.
  2. Liu T, Qian WJ, Strittmatter EF, Camp DG 2nd, Anderson GA, Thrall BD, Smith RD, (2004) "High-throughput comparative proteome analysis using a quantitative cysteinyl-peptide enrichment technology." Anal Chem 76(18):5345–53; PMID: 15362891; doi: 10.1021/ac049485q; GPMDB: 6.
  3. Sauer G, Körner R, Hanisch A, Ries A, Nigg EA, Silljé HH, (2005) "Proteome analysis of the human mitotic spindle." Mol Cell Proteomics 4(1):35–43; PMID: 15561729; doi: 10.1074/mcp.M400158-MCP200; GPMDB: 1.
  4. Klein C, Garcia-Rizo C, Bisle B, Scheffer B, Zischka H, Pfeiffer F, Siedler F, Oesterhelt D, (2005) "The membrane proteome of Halobacterium salinarum." Proteomics 5(1):180–97; PMID: 15619294; doi: 10.1002/pmic.200400943; GPMDB: 37.
  5. Searle BC, Dasari S, Wilmarth PA, Turner M, Reddy AP, David LL, Nagalla SR, (2005) "Identification of protein modifications using MS/MS de novo sequencing and the OpenSea alignment algorithm." J Proteome Res 4(2):546–54; PMID: 15822933; doi: 10.1021/pr049781j; GPMDB: 4.
  6. Elias JE, Haas W, Faherty BK, Gygi SP, (2005) "Comparative evaluation of mass spectrometry platforms used in large-scale proteomics investigations." Nat Methods 2(9):667–75; PMID: 16118637; doi: 10.1038/nmeth785; GPMDB: 30.
  7. Lee YJ, Rice RH, Lee YM, (2006) "Proteome analysis of human hair shaft: from protein identification to posttranslational modification." Mol Cell Proteomics 5(5):789–800; PMID: 16446289; doi: 10.1074/mcp.M500278-MCP200; GPMDB: 75.
  8. Gatlin CL, Pieper R, Huang ST, Mongodin E, Gebregeorgis E, Parmar PP, Clark DJ, Alami H, Papazisi L, Fleischmann RD, Gill SR, Peterson SN, (2006) "Proteomic profiling of cell envelope-associated proteins from Staphylococcus aureus." Proteomics 6(5):1530–49; PMID: 16470658; doi: 10.1002/pmic.200500253; GPMDB: 1603.
  9. Keshamouni VG, Michailidis G, Grasso CS, Anthwal S, Strahler JR, Walker A, Arenberg DA, Reddy RC, Akulapalli S, Thannickal VJ, Standiford TJ, Andrews PC, Omenn GS, (2006) "Differential protein expression profiling by iTRAQ-2DLC-MS/MS of lung cancer cells undergoing epithelial-mesenchymal transition reveals a migratory/invasive phenotype." J Proteome Res 5(5):1143–54; PMID: 16674103; doi: 10.1021/pr050455t; GPMDB: 3.
  10. Bisle B, Schmidt A, Scheibe B, Klein C, Tebbe A, Kellermann J, Siedler F, Pfeiffer F, Lottspeich F, Oesterhelt D, (2006) "Quantitative profiling of the membrane proteome in a halophilic archaeon." Mol Cell Proteomics 5(9):1543–58; PMID: 16804162; doi: 10.1074/mcp.M600106-MCP200; GPMDB: 32.
  11. Hamacher M, Apweiler R, Arnold G, Becker A, Blüggel M, Carrette O, Colvis C, Dunn MJ, Fröhlich T, Fountoulakis M, van Hall A, Herberg F, Ji J, Kretzschmar H, Lewczuk P, Lubec G, Marcus K, Martens L, Palacios Bustamante N, Park YM, Pennington SR, Robben J, Stühler K, Reidegeld KA, Riederer P, Rossier J, Sanchez JC, Schrader M, Stephan C, Tagle D, Thiele H, Wang J, Wiltfang J, Yoo JS, Zhang C, Klose J, Meyer HE, (2006) "HUPO Brain Proteome Project: summary of the pilot phase and introduction of a comprehensive data reprocessing strategy." Proteomics 6(18):4890–8; PMID: 16927433; doi: 10.1002/pmic.200600295; GPMDB: 296.
  12. Beausoleil SA, Villén J, Gerber SA, Rush J, Gygi SP, (2006) "A probability-based approach for high-throughput protein phosphorylation analysis and site localization." Nat Biotechnol 24(10):1285–92; PMID: 16964243; doi: 10.1038/nbt1240; GPMDB: 31.
  13. Whitehead K, Kish A, Pan M, Kaur A, Reiss DJ, King N, Hohmann L, DiRuggiero J, Baliga NS, (2006) "An integrated systems approach for understanding cellular responses to gamma radiation." Mol Syst Biol 2:47; PMID: 16969339; doi: 10.1038/msb4100091; GPMDB: 27.
  14. Price TS, Lucitt MB, Wu W, Austin DJ, Pizarro A, Yocum AK, Blair IA, FitzGerald GA, Grosser T, (2007) "EBP, a program for protein identification using multiple tandem mass spectrometry datasets." Mol Cell Proteomics 6(3):527–36; PMID: 17164401; doi: 10.1074/mcp.T600049-MCP200; GPMDB: 314.
  15. Tanner S, Shen Z, Ng J, Florea L, Guigó R, Briggs SP, Bafna V, (2007) "Improving gene annotation using peptide mass spectrometry." Genome Res 17(2):231–9; PMID: 17189379; doi: 10.1101/gr.5646507; GPMDB: 1.
  16. Konstantinidis K, Tebbe A, Klein C, Scheffer B, Aivaliotis M, Bisle B, Falb M, Pfeiffer F, Siedler F, Oesterhelt D, (2007) "Genome-wide proteomics of Natronomonas pharaonis." J Proteome Res 6(1):185–93; PMID: 17203963; doi: 10.1021/pr060352q; GPMDB: 176.
  17. Villén J, Beausoleil SA, Gerber SA, Gygi SP, (2007) "Large-scale phosphorylation analysis of mouse liver." Proc Natl Acad Sci U S A 104(5):1488–93; PMID: 17242355; doi: 10.1073/pnas.0609836104; GPMDB: 1.
  18. Klein C, Aivaliotis M, Olsen JV, Falb M, Besir H, Scheffer B, Bisle B, Tebbe A, Konstantinidis K, Siedler F, Pfeiffer F, Mann M, Oesterhelt D, (2007) "The low molecular weight proteome of Halobacterium salinarum." J Proteome Res 6(4):1510–8; PMID: 17326674; doi: 10.1021/pr060634q; GPMDB: 10.
  19. Asara JM, Schweitzer MH, Freimark LM, Phillips M, Cantley LC, (2007) "Protein sequences from mastodon and Tyrannosaurus rex revealed by mass spectrometry." Science 316(5822):280–5; PMID: 17431180; doi: 10.1126/science.1137614; GPMDB: 2.
  20. Lowery DM, Clauser KR, Hjerrild M, Lim D, Alexander J, Kishi K, Ong SE, Gammeltoft S, Carr SA, Yaffe MB, (2007) "Proteomic screen defines the Polo-box domain interactome and identifies Rock2 as a Plk1 substrate." EMBO J 26(9):2262–73; PMID: 17446864; doi: 10.1038/sj.emboj.7601683; GPMDB: 24.
  21. Brunner E, Ahrens CH, Mohanty S, Baetschmann H, Loevenich S, Potthast F, Deutsch EW, Panse C, de Lichtenberg U, Rinner O, Lee H, Pedrioli PG, Malmstrom J, Koehler K, Schrimpf S, Krijgsveld J, Kregenow F, Heck AJ, Hafen E, Schlapbach R, Aebersold R, (2007) "A high-quality catalog of the Drosophila melanogaster proteome." Nat Biotechnol 25(5):576–83; PMID: 17450130; doi: 10.1038/nbt1300; GPMDB: 1907.
  22. Wu L, Hwang SI, Rezaul K, Lu LJ, Mayya V, Gerstein M, Eng JK, Lundgren DH, Han DK, (2007) "Global survey of human T leukemic cells by integrating proteomics and transcriptomics profiling." Mol Cell Proteomics 6(8):1343–53; PMID: 17519225; doi: 10.1074/mcp.M700017-MCP200; GPMDB: 2299.
  23. Au CE, Bell AW, Gilchrist A, Hiding J, Nilsson T, Bergeron JJ, (2007) "Organellar proteomics to create the cell map." Curr Opin Cell Biol 19(4):376–85; PMID: 17689063; doi: 10.1016/j.ceb.2007.05.004; GPMDB: 4090.
  24. Whiteaker JR, Zhang H, Zhao L, Wang P, Kelly-Spratt KS, Ivey RG, Piening BD, Feng LC, Kasarda E, Gurley KE, Eng JK, Chodosh LA, Kemp CJ, McIntosh MW, Paulovich AG, (2007) "Integrated pipeline for mass spectrometry-based discovery and confirmation of biomarkers demonstrated in a mouse model of breast cancer." J Proteome Res 6(10):3962–75; PMID: 17711321; doi: 10.1021/pr070202v; GPMDB: 84.
  25. Bantscheff M, Eberhard D, Abraham Y, Bastuck S, Boesche M, Hobson S, Mathieson T, Perrin J, Raida M, Rau C, Reader V, Sweetman G, Bauer A, Bouwmeester T, Hopf C, Kruse U, Neubauer G, Ramsden N, Rick J, Kuster B, Drewes G, (2007) "Quantitative chemical proteomics reveals mechanisms of action of clinical ABL kinase inhibitors." Nat Biotechnol 25(9):1035–44; PMID: 17721511; doi: 10.1038/nbt1328; GPMDB: 729.
  26. Padliya ND, Garrett WM, Campbell KB, Tabb DL, Cooper B, (2007) "Tandem mass spectrometry for the detection of plant pathogenic fungi and the effects of database composition on protein inferences." Proteomics 7(21):3932–42; PMID: 17922518; doi: 10.1002/pmic.200700419; GPMDB: 1.
  27. Rikova K, Guo A, Zeng Q, Possemato A, Yu J, Haack H, Nardone J, Lee K, Reeves C, Li Y, Hu Y, Tan Z, Stokes M, Sullivan L, Mitchell J, Wetzel R, Macneill J, Ren JM, Yuan J, Bakalarski CE, Villen J, Kornhauser JM, Smith B, Li D, Zhou X, Gygi SP, Gu TL, Polakiewicz RD, Rush J, Comb MJ, (2007) "Global survey of phosphotyrosine signaling identifies oncogenic kinases in lung cancer." Cell 131(6):1190–203; PMID: 18083107; doi: 10.1016/j.cell.2007.11.025; GPMDB: 104.
  28. Ansong C, Yoon H, Norbeck AD, Gustin JK, McDermott JE, Mottaz HM, Rue J, Adkins JN, Heffron F, Smith RD, (2008) "Proteomics analysis of the causative agent of typhoid fever." J Proteome Res 7(2):546–57; PMID: 18166006; doi: 10.1021/pr070434u; GPMDB: 313.
  29. Finney GL, Blackler AR, Hoopmann MR, Canterbury JD, Wu CC, MacCoss MJ, (2008) "Label-free comparative analysis of proteomics mixtures using chromatographic alignment of high-resolution muLC-MS data." Anal Chem 80(4):961–71; PMID: 18189369; doi: 10.1021/ac701649e; GPMDB: 12.
  30. Stevens SM Jr, Duncan RS, Koulen P, Prokai L, (2008) "Proteomic analysis of mouse brain microsomes: identification and bioinformatic characterization of endoplasmic reticulum proteins in the mammalian central nervous system." J Proteome Res 7(3):1046–54; PMID: 18271522; doi: 10.1021/pr7006279; GPMDB: 4.
  31. Yocum AK, Gratsch TE, Leff N, Strahler JR, Hunter CL, Walker AK, Michailidis G, Omenn GS, O'Shea KS, Andrews PC, (2008) "Coupled global and targeted proteomics of human embryonic stem cells during induced differentiation." Mol Cell Proteomics 7(4):750–67; PMID: 18304949; doi: 10.1074/mcp.M700399-MCP200; GPMDB: 18.
  32. Lemeer S, Pinkse MW, Mohammed S, van Breukelen B, den Hertog J, Slijper M, Heck AJ, (2008) "Online automated in vivo zebrafish phosphoproteomics: from large-scale analysis down to a single embryo." J Proteome Res 7(4):1555–64; PMID: 18307296; doi: 10.1021/pr700667w; GPMDB: 148.
  33. Zhai B, Villén J, Beausoleil SA, Mintseris J, Gygi SP, (2008) "Phosphoproteome analysis of Drosophila melanogaster embryos." J Proteome Res 7(4):1675–82; PMID: 18327897; doi: 10.1021/pr700696a; GPMDB: 24.
  34. Denny P, Hagen FK, Hardt M, Liao L, Yan W, Arellanno M, Bassilian S, Bedi GS, Boontheung P, Cociorva D, Delahunty CM, Denny T, Dunsmore J, Faull KF, Gilligan J, Gonzalez-Begne M, Halgand F, Hall SC, Han X, Henson B, Hewel J, Hu S, Jeffrey S, Jiang J, Loo JA, Ogorzalek Loo RR, Malamud D, Melvin JE, Miroshnychenko O, Navazesh M, Niles R, Park SK, Prakobphol A, Ramachandran P, Richert M, Robinson S, Sondej M, Souda P, Sullivan MA, Takashima J, Than S, Wang J, Whitelegge JP, Witkowska HE, Wolinsky L, Xie Y, Xu T, Yu W, Ytterberg J, Wong DT, Yates JR 3rd, Fisher SJ, (2008) "The proteomes of human parotid and submandibular/sublingual gland salivas collected as the ductal secretions." J Proteome Res 7(5):1994–2006; PMID: 18361515; doi: 10.1021/pr700764j; GPMDB: 102.
  35. Simó C, Bachi A, Cattaneo A, Guerrier L, Fortis F, Boschetti E, Podtelejnikov A, Righetti PG, (2008) "Performance of combinatorial peptide libraries in capturing the low-abundance proteome of red blood cells. 1. Behavior of mono- to hexapeptides." Anal Chem 80(10):3547–56; PMID: 18399644; doi: 10.1021/ac702635v; GPMDB: 19.
  36. Bachi A, Simó C, Restuccia U, Guerrier L, Fortis F, Boschetti E, Masseroli M, Righetti PG, (2008) "Performance of combinatorial peptide libraries in capturing the low-abundance proteome of red blood cells. 2. Behavior of resins containing individual amino acids." Anal Chem 80(10):3557–65; PMID: 18410134; doi: 10.1021/ac8001353; GPMDB: 2.
  37. Baerenfaller K, Grossmann J, Grobei MA, Hull R, Hirsch-Hoffmann M, Yalovsky S, Zimmermann P, Grossniklaus U, Gruissem W, Baginsky S, (2008) "Genome-scale proteomics reveals Arabidopsis thaliana gene models and proteome dynamics." Science 320(5878):938–41; PMID: 18436743; doi: 10.1126/science.1157956; GPMDB: 28.
  38. Ji H, Erfani N, Tauro BJ, Kapp EA, Zhu HJ, Moritz RL, Lim JW, Simpson RJ, (2008) "Difference gel electrophoresis analysis of Ras-transformed fibroblast cell-derived exosomes." Electrophoresis 29(12):2660–71; PMID: 18494037; doi: 10.1002/elps.200800015; GPMDB: 26.
  39. Cao Z, Li C, Higginbotham JN, Franklin JL, Tabb DL, Graves-Deal R, Hill S, Cheek K, Jerome WG, Lapierre LA, Goldenring JR, Ham AJ, Coffey RJ, (2008) "Use of fluorescence-activated vesicle sorting for isolation of Naked2-associated, basolaterally targeted exocytic vesicles for proteomics analysis." Mol Cell Proteomics 7(9):1651–67; PMID: 18504258; doi: 10.1074/mcp.M700155-MCP200; GPMDB: 6.
  40. Lemeer S, Jopling C, Gouw J, Mohammed S, Heck AJ, Slijper M, den Hertog J, (2008) "Comparative phosphoproteomics of zebrafish Fyn/Yes morpholino knockdown embryos." Mol Cell Proteomics 7(11):2176–87; PMID: 18550893; doi: 10.1074/mcp.M800081-MCP200; GPMDB: 31.
  41. Sodek KL, Evangelou AI, Ignatchenko A, Agochiya M, Brown TJ, Ringuette MJ, Jurisica I, Kislinger T, (2008) "Identification of pathways associated with invasive behavior by ovarian cancer cells using multidimensional protein identification technology (MudPIT)." Mol Biosyst 4(7):762–73; PMID: 18563251; doi: 10.1039/b717542f; GPMDB: 252.
  42. Schimmel J, Larsen KM, Matic I, van Hagen M, Cox J, Mann M, Andersen JS, Vertegaal AC, (2008) "The ubiquitin-proteasome system is a key component of the SUMO-2/3 cycle." Mol Cell Proteomics 7(11):2107–22; PMID: 18565875; doi: 10.1074/mcp.M800025-MCP200; GPMDB: 5.
  43. Yu MJ, Pisitkun T, Wang G, Aranda JF, Gonzales PA, Tchapyjnikov D, Shen RF, Alonso MA, Knepper MA, (2008) "Large-scale quantitative LC-MS/MS analysis of detergent-resistant membrane proteins from rat renal collecting duct." Am J Physiol Cell Physiol 295(3):C661–78; PMID: 18596208; doi: 10.1152/ajpcell.90650.2007; GPMDB: 137.
  44. Pagliarini DJ, Calvo SE, Chang B, Sheth SA, Vafai SB, Ong SE, Walford GA, Sugiana C, Boneh A, Chen WK, Hill DE, Vidal M, Evans JG, Thorburn DR, Carr SA, Mootha VK, (2008) "A mitochondrial protein compendium elucidates complex I disease biology." Cell 134(1):112–23; PMID: 18614015; doi: 10.1016/j.cell.2008.06.016; GPMDB: 274.
  45. Merrihew GE, Davis C, Ewing B, Williams G, Käll L, Frewen BE, Noble WS, Green P, Thomas JH, MacCoss MJ, (2008) "Use of shotgun proteomics for the identification, confirmation, and correction of C. elegans gene annotations." Genome Res 18(10):1660–9; PMID: 18653799; doi: 10.1101/gr.077644.108; GPMDB: 369.
  46. Dix MM, Simon GM, Cravatt BF, (2008) "Global mapping of the topography and magnitude of proteolytic events in apoptosis." Cell 134(4):679–91; PMID: 18724940; doi: 10.1016/j.cell.2008.06.038; GPMDB: 178.
  47. Kline KG, Frewen B, Bristow MR, Maccoss MJ, Wu CC, (2008) "High quality catalog of proteotypic peptides from human heart." J Proteome Res 7(11):5055–61; PMID: 18803417; doi: 10.1021/pr800239e; GPMDB: 96.
  48. de Godoy LM, Olsen JV, Cox J, Nielsen ML, Hubner NC, Fröhlich F, Walther TC, Mann M, (2008) "Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast." Nature 455(7217):1251–4; PMID: 18820680; doi: 10.1038/nature07341; GPMDB: 505.
  49. Liao L, Park SK, Xu T, Vanderklish P, Yates JR 3rd, (2008) "Quantitative proteomic analysis of primary neurons reveals diverse changes in synaptic protein content in fmr1 knockout mice." Proc Natl Acad Sci U S A 105(40):15281–6; PMID: 18829439; doi: 10.1073/pnas.0804678105; GPMDB: 15.
  50. Lin MK, Lee YJ, Lough TJ, Phinney BS, Lucas WJ, (2009) "Analysis of the pumpkin phloem proteome provides insights into angiosperm sieve tube function." Mol Cell Proteomics 8(2):343–56; PMID: 18936055; doi: 10.1074/mcp.M800420-MCP200; GPMDB: 346.
  51. Slebos RJ, Brock JW, Winters NF, Stuart SR, Martinez MA, Li M, Chambers MC, Zimmerman LJ, Ham AJ, Tabb DL, Liebler DC, (2008) "Evaluation of strong cation exchange versus isoelectric focusing of peptides for multidimensional liquid chromatography-tandem mass spectrometry." J Proteome Res 7(12):5286–94; PMID: 18939861; doi: 10.1021/pr8004666; GPMDB: 346.
  52. Mittler G, Butter F, Mann M, (2009) "A SILAC-based DNA protein interaction screen that identifies candidate binding proteins to functional DNA elements." Genome Res 19(2):284–93; PMID: 19015324; doi: 10.1101/gr.081711.108; GPMDB: 7.
  53. Codreanu SG, Zhang B, Sobecki SM, Billheimer DD, Liebler DC, (2009) "Global analysis of protein damage by the lipid electrophile 4-hydroxy-2-nonenal." Mol Cell Proteomics 8(4):670–80; PMID: 19054759; doi: 10.1074/mcp.M800070-MCP200; GPMDB: 168.
  54. Ulintz PJ, Yocum AK, Bodenmiller B, Aebersold R, Andrews PC, Nesvizhskii AI, (2009) "Comparison of MS(2)-only, MSA, and MS(2)/MS(3) methodologies for phosphopeptide identification." J Proteome Res 8(2):887–99; PMID: 19072539; doi: 10.1021/pr800535h; GPMDB: 18.
  55. Du J, Bernasconi P, Clauser KR, Mani DR, Finn SP, Beroukhim R, Burns M, Julian B, Peng XP, Hieronymus H, Maglathlin RL, Lewis TA, Liau LM, Nghiemphu P, Mellinghoff IK, Louis DN, Loda M, Carr SA, Kung AL, Golub TR, (2009) "Bead-based profiling of tyrosine kinase phosphorylation identifies SRC as a potential target for glioblastoma therapy." Nat Biotechnol 27(1):77–83; PMID: 19098899; doi: 10.1038/nbt.1513; GPMDB: 36.
  56. Glatter T, Wepf A, Aebersold R, Gstaiger M, (2009) "An integrated workflow for charting the human interaction proteome: insights into the PP2A system." Mol Syst Biol 5:237; PMID: 19156129; doi: 10.1038/msb.2008.75; GPMDB: 62.
  57. Bivi N, Bereszczak JZ, Romanello M, Zeef LA, Delneri D, Quadrifoglio F, Moro L, Brancia FL, Tell G, (2009) "Transcriptome and proteome analysis of osteocytes treated with nitrogen-containing bisphosphonates." J Proteome Res 8(3):1131–42; PMID: 19226166; doi: 10.1021/pr8005606; GPMDB: 10.
  58. Pieper R, Huang ST, Clark DJ, Robinson JM, Alami H, Parmar PP, Suh MJ, Kuntumalla S, Bunai CL, Perry RD, Fleischmann RD, Peterson SN, (2009) "Integral and peripheral association of proteins and protein complexes with Yersinia pestis inner and outer membranes." Proteome Sci 7:5; PMID: 19228400; doi: 10.1186/1477-5956-7-5; GPMDB: 376.
  59. de Sousa Abreu R, Sanchez-Diaz PC, Vogel C, Burns SC, Ko D, Burton TL, Vo DT, Chennasamudaram S, Le SY, Shapiro BA, Penalva LO, (2009) "Genomic analyses of musashi1 downstream targets show a strong association with cancer-related processes." J Biol Chem 284(18):12125–35; PMID: 19258308; doi: 10.1074/jbc.M809605200; GPMDB: 14.
  60. Mathias RA, Wang B, Ji H, Kapp EA, Moritz RL, Zhu HJ, Simpson RJ, (2009) "Secretome-based proteomic profiling of Ras-transformed MDCK cells reveals extracellular modulators of epithelial-mesenchymal transition." J Proteome Res 8(6):2827–37; PMID: 19296674; doi: 10.1021/pr8010974; GPMDB: 98