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Simply because data is made available does not mean that it will be included in GPMDB. The data must be approved our quality control AI for its initial acceptance and it may be rejected subsequently because of either quality or originality concerns. | Simply because data is made available does not mean that it will be included in GPMDB. The data must be approved our quality control AI for its initial acceptance and it may be rejected subsequently because of either quality or originality concerns. | ||
+ | |||
+ | <b>CAUTION</b>: Many papers contain serious errors in their Methods sections. When using data from the literature, it is important to be skeptical of any experimental parameter (cell line, tissue type, modification reagents, quantitation methoods, etc.) that may impact on your use of the data. We have tried to correct any obvious errors, but there is no way to guarantee that we found them all. When attempting to analyze or reproduce results, keep in mind the likelyhood that even key parts of the experiment methods may have been recorded incorrectly in the associated manuscript, as methods are rarely reviewed properly in the current journal publication process. | ||
==Data from publications== | ==Data from publications== | ||
- | The following is a list of 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 | + | The following is a list of 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 Jan. 22, 2018. |
#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." <i>Proc Natl Acad Sci U S A</i> <b>99</b>(17):11049–54; 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) "Global analysis of the Deinococcus radiodurans proteome by using accurate mass tags." <i>Proc Natl Acad Sci U S A</i> <b>99</b>(17):11049–54; 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]. | ||
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#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) "Quantitative interaction proteomics of neurodegenerative disease proteins." <i>Cell Rep</i> <b>11</b>(7):1134–46; 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) "Quantitative interaction proteomics of neurodegenerative disease proteins." <i>Cell Rep</i> <b>11</b>(7):1134–46; 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) "Proteomic Validation of Transcript Isoforms, Including Those Assembled from RNA-Seq Data." <i>J Proteome Res</i> <b>14</b>(9):3541–54; 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) "Proteomic Validation of Transcript Isoforms, Including Those Assembled from RNA-Seq Data." <i>J Proteome Res</i> <b>14</b>(9):3541–54; 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]. | ||
+ | #Drissi R, Dubois ML, Douziech M, Boisvert FM, (2015) "Quantitative Proteomics Reveals Dynamic Interactions of the Minichromosome Maintenance Complex (MCM) in the Cellular Response to Etoposide Induced DNA Damage." <i>Mol Cell Proteomics</i> <b>14</b>(7):2002–13; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25963833 25963833]; doi: [https://dx.doi.org/10.1074/mcp.M115.048991 10.1074/mcp.M115.048991]; GPMDB: [http://gpmdb.org/data/keyword/25963833 48]. | ||
#Koch H, Busto ME, Kramer K, Médard G, Kuster B, (2015) "Chemical Proteomics Uncovers EPHA2 as a Mechanism of Acquired Resistance to Small Molecule EGFR Kinase Inhibition." <i>J Proteome Res</i> <b>14</b>(6):2617–25; 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) "Chemical Proteomics Uncovers EPHA2 as a Mechanism of Acquired Resistance to Small Molecule EGFR Kinase Inhibition." <i>J Proteome Res</i> <b>14</b>(6):2617–25; 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) "Structural analyses of the chromatin remodelling enzymes INO80-C and SWR-C." <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) "Structural analyses of the chromatin remodelling enzymes INO80-C and SWR-C." <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]. | ||
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#Li S, Dislich B, Brakebusch CH, Lichtenthaler SF, Brocker T, (2015) "Control of Homeostasis and Dendritic Cell Survival by the GTPase RhoA." <i>J Immunol</i> <b>195</b>(9):4244–56; 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) "Control of Homeostasis and Dendritic Cell Survival by the GTPase RhoA." <i>J Immunol</i> <b>195</b>(9):4244–56; 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]. | ||
#Beckley JR, Chen JS, Yang Y, Peng J, Gould KL, (2015) "A Degenerate Cohort of Yeast Membrane Trafficking DUBs Mediates Cell Polarity and Survival." <i>Mol Cell Proteomics</i> <b>14</b>(12):3132–41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26412298 26412298]; doi: [https://dx.doi.org/10.1074/mcp.M115.050039 10.1074/mcp.M115.050039]; GPMDB: [http://gpmdb.org/data/keyword/26412298 246]. | #Beckley JR, Chen JS, Yang Y, Peng J, Gould KL, (2015) "A Degenerate Cohort of Yeast Membrane Trafficking DUBs Mediates Cell Polarity and Survival." <i>Mol Cell Proteomics</i> <b>14</b>(12):3132–41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26412298 26412298]; doi: [https://dx.doi.org/10.1074/mcp.M115.050039 10.1074/mcp.M115.050039]; GPMDB: [http://gpmdb.org/data/keyword/26412298 246]. | ||
- | #Glatter T, Ahrné E, Schmidt A, (2015) "Comparison of Different Sample Preparation Protocols Reveals Lysis Buffer-Specific Extraction Biases in Gram-Negative Bacteria and Human Cells." <i>J Proteome Res</i> <b>14</b>(11):4472–85; 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 | + | #Glatter T, Ahrné E, Schmidt A, (2015) "Comparison of Different Sample Preparation Protocols Reveals Lysis Buffer-Specific Extraction Biases in Gram-Negative Bacteria and Human Cells." <i>J Proteome Res</i> <b>14</b>(11):4472–85; 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 901]. |
#Hadley KC, Rakhit R, Guo H, Sun Y, Jonkman JE, McLaurin J, Hazrati LN, Emili A, Chakrabartty A, (2015) "Determining composition of micron-scale protein deposits in neurodegenerative disease by spatially targeted optical microproteomics." <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) "Determining composition of micron-scale protein deposits in neurodegenerative disease by spatially targeted optical microproteomics." <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) "Extracellular vesicles are rapidly purified from human plasma by PRotein Organic Solvent PRecipitation (PROSPR)." <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) "Extracellular vesicles are rapidly purified from human plasma by PRotein Organic Solvent PRecipitation (PROSPR)." <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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#Mertins P, Mani DR, Ruggles KV, Gillette MA, Clauser KR, Wang P, Wang X, Qiao JW, Cao S, Petralia F, Kawaler E, Mundt F, Krug K, Tu Z, Lei JT, Gatza ML, Wilkerson M, Perou CM, Yellapantula V, Huang KL, Lin C, McLellan MD, Yan P, Davies SR, Townsend RR, Skates SJ, Wang J, Zhang B, Kinsinger CR, Mesri M, Rodriguez H, Ding L, Paulovich AG, Fenyö D, Ellis MJ, Carr SA, NCI CPTAC., (2016) "Proteogenomics connects somatic mutations to signalling in breast cancer." <i>Nature</i> <b>534</b>(7605):55–62; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27251275 27251275]; doi: [https://dx.doi.org/10.1038/nature18003 10.1038/nature18003]; GPMDB: [http://gpmdb.org/data/keyword/27251275 1265]. | #Mertins P, Mani DR, Ruggles KV, Gillette MA, Clauser KR, Wang P, Wang X, Qiao JW, Cao S, Petralia F, Kawaler E, Mundt F, Krug K, Tu Z, Lei JT, Gatza ML, Wilkerson M, Perou CM, Yellapantula V, Huang KL, Lin C, McLellan MD, Yan P, Davies SR, Townsend RR, Skates SJ, Wang J, Zhang B, Kinsinger CR, Mesri M, Rodriguez H, Ding L, Paulovich AG, Fenyö D, Ellis MJ, Carr SA, NCI CPTAC., (2016) "Proteogenomics connects somatic mutations to signalling in breast cancer." <i>Nature</i> <b>534</b>(7605):55–62; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27251275 27251275]; doi: [https://dx.doi.org/10.1038/nature18003 10.1038/nature18003]; GPMDB: [http://gpmdb.org/data/keyword/27251275 1265]. | ||
#Humphrey ES, Su SP, Nagrial AM, Hochgräfe F, Pajic M, Lehrbach GM, Parton RG, Yap AS, Horvath LG, Chang DK, Biankin AV, Wu J, Daly RJ, (2016) "Resolution of Novel Pancreatic Ductal Adenocarcinoma Subtypes by Global Phosphotyrosine Profiling." <i>Mol Cell Proteomics</i> <b>15</b>(8):2671–85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27259358 27259358]; doi: [https://dx.doi.org/10.1074/mcp.M116.058313 10.1074/mcp.M116.058313]; GPMDB: [http://gpmdb.org/data/keyword/27259358 112]. | #Humphrey ES, Su SP, Nagrial AM, Hochgräfe F, Pajic M, Lehrbach GM, Parton RG, Yap AS, Horvath LG, Chang DK, Biankin AV, Wu J, Daly RJ, (2016) "Resolution of Novel Pancreatic Ductal Adenocarcinoma Subtypes by Global Phosphotyrosine Profiling." <i>Mol Cell Proteomics</i> <b>15</b>(8):2671–85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27259358 27259358]; doi: [https://dx.doi.org/10.1074/mcp.M116.058313 10.1074/mcp.M116.058313]; GPMDB: [http://gpmdb.org/data/keyword/27259358 112]. | ||
+ | #Hintermair C, Voß K, Forné I, Heidemann M, Flatley A, Kremmer E, Imhof A, Eick D, (2016) "Specific threonine-4 phosphorylation and function of RNA polymerase II CTD during M phase progression." <i>Sci Rep</i> <b>6</b>:27401; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27264542 27264542]; doi: [https://dx.doi.org/10.1038/srep27401 10.1038/srep27401]; GPMDB: [http://gpmdb.org/data/keyword/27264542 63]. | ||
#Xu L, Gao Y, Chen Y, Xiao Y, He Q, Qiu H, Ge W, (2016) "Quantitative proteomics reveals that distant recurrence-associated protein R-Ras and Transgelin predict post-surgical survival in patients with Stage III colorectal cancer." <i>Oncotarget</i> <b>7</b>(28):43868–43893; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27270312 27270312]; doi: [https://dx.doi.org/10.18632/oncotarget.9701 10.18632/oncotarget.9701]; GPMDB: [http://gpmdb.org/data/keyword/27270312 2]. | #Xu L, Gao Y, Chen Y, Xiao Y, He Q, Qiu H, Ge W, (2016) "Quantitative proteomics reveals that distant recurrence-associated protein R-Ras and Transgelin predict post-surgical survival in patients with Stage III colorectal cancer." <i>Oncotarget</i> <b>7</b>(28):43868–43893; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27270312 27270312]; doi: [https://dx.doi.org/10.18632/oncotarget.9701 10.18632/oncotarget.9701]; GPMDB: [http://gpmdb.org/data/keyword/27270312 2]. | ||
#Gnad F, Doll S, Song K, Stokes MP, Moffat J, Liu B, Arnott D, Wallin J, Friedman LS, Hatzivassiliou G, Belvin M, (2016) "Phosphoproteome analysis of the MAPK pathway reveals previously undetected feedback mechanisms." <i>Proteomics</i> <b>16</b>(14):1998–2004; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27273156 27273156]; doi: [https://dx.doi.org/10.1002/pmic.201600119 10.1002/pmic.201600119]; GPMDB: [http://gpmdb.org/data/keyword/27273156 56]. | #Gnad F, Doll S, Song K, Stokes MP, Moffat J, Liu B, Arnott D, Wallin J, Friedman LS, Hatzivassiliou G, Belvin M, (2016) "Phosphoproteome analysis of the MAPK pathway reveals previously undetected feedback mechanisms." <i>Proteomics</i> <b>16</b>(14):1998–2004; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27273156 27273156]; doi: [https://dx.doi.org/10.1002/pmic.201600119 10.1002/pmic.201600119]; GPMDB: [http://gpmdb.org/data/keyword/27273156 56]. | ||
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#Mauri M, Kirchner M, Aharoni R, Ciolli Mattioli C, van den Bruck D, Gutkovitch N, Modepalli V, Selbach M, Moran Y, Chekulaeva M, (2016) "Conservation of miRNA-mediated silencing mechanisms across 600 million years of animal evolution." <i>Nucleic Acids Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27604873 27604873]; doi: [https://dx.doi.org/10.1093/nar/gkw792 10.1093/nar/gkw792]; GPMDB: [http://gpmdb.org/data/keyword/27604873 35]. | #Mauri M, Kirchner M, Aharoni R, Ciolli Mattioli C, van den Bruck D, Gutkovitch N, Modepalli V, Selbach M, Moran Y, Chekulaeva M, (2016) "Conservation of miRNA-mediated silencing mechanisms across 600 million years of animal evolution." <i>Nucleic Acids Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27604873 27604873]; doi: [https://dx.doi.org/10.1093/nar/gkw792 10.1093/nar/gkw792]; GPMDB: [http://gpmdb.org/data/keyword/27604873 35]. | ||
#Lee J, McKinney KQ, Pavlopoulos AJ, Han MH, Kim SH, Kim HJ, Hwang S, (2016) "Exosomal proteome analysis of cerebrospinal fluid detects biosignatures of neuromyelitis optica and multiple sclerosis." <i>Clin Chim Acta</i> <b>462</b>:118–126; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27609124 27609124]; doi: [https://dx.doi.org/10.1016/j.cca.2016.09.001 10.1016/j.cca.2016.09.001]; GPMDB: [http://gpmdb.org/data/keyword/27609124 24]. | #Lee J, McKinney KQ, Pavlopoulos AJ, Han MH, Kim SH, Kim HJ, Hwang S, (2016) "Exosomal proteome analysis of cerebrospinal fluid detects biosignatures of neuromyelitis optica and multiple sclerosis." <i>Clin Chim Acta</i> <b>462</b>:118–126; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27609124 27609124]; doi: [https://dx.doi.org/10.1016/j.cca.2016.09.001 10.1016/j.cca.2016.09.001]; GPMDB: [http://gpmdb.org/data/keyword/27609124 24]. | ||
+ | #Mulvaney KM, Matson JP, Siesser PF, Tamir TY, Goldfarb D, Jacobs TM, Cloer EW, Harrison JS, Vaziri C, Cook JG, Major MB, (2016) "Identification and Characterization of MCM3 as a Kelch-like ECH-associated Protein 1 (KEAP1) Substrate." <i>J Biol Chem</i> <b>291</b>(45):23719–23733; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27621311 27621311]; doi: [https://dx.doi.org/10.1074/jbc.M116.729418 10.1074/jbc.M116.729418]; GPMDB: [http://gpmdb.org/data/keyword/27621311 22]. | ||
#Subramanian S, Souleimanov A, Smith DL, (2016) "Proteomic Studies on the Effects of Lipo-Chitooligosaccharide and Thuricin 17 under Unstressed and Salt Stressed Conditions in Arabidopsis thaliana." <i>Front Plant Sci</i> <b>7</b>:1314; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27625672 27625672]; doi: [https://dx.doi.org/10.3389/fpls.2016.01314 10.3389/fpls.2016.01314]; GPMDB: [http://gpmdb.org/data/keyword/27625672 36]. | #Subramanian S, Souleimanov A, Smith DL, (2016) "Proteomic Studies on the Effects of Lipo-Chitooligosaccharide and Thuricin 17 under Unstressed and Salt Stressed Conditions in Arabidopsis thaliana." <i>Front Plant Sci</i> <b>7</b>:1314; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27625672 27625672]; doi: [https://dx.doi.org/10.3389/fpls.2016.01314 10.3389/fpls.2016.01314]; GPMDB: [http://gpmdb.org/data/keyword/27625672 36]. | ||
#Stroud DA, Surgenor EE, Formosa LE, Reljic B, Frazier AE, Dibley MG, Osellame LD, Stait T, Beilharz TH, Thorburn DR, Salim A, Ryan MT, (2016) "Accessory subunits are integral for assembly and function of human mitochondrial complex I." <i>Nature</i> <b>538</b>(7623):123–126; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27626371 27626371]; doi: [https://dx.doi.org/10.1038/nature19754 10.1038/nature19754]; GPMDB: [http://gpmdb.org/data/keyword/27626371 10]. | #Stroud DA, Surgenor EE, Formosa LE, Reljic B, Frazier AE, Dibley MG, Osellame LD, Stait T, Beilharz TH, Thorburn DR, Salim A, Ryan MT, (2016) "Accessory subunits are integral for assembly and function of human mitochondrial complex I." <i>Nature</i> <b>538</b>(7623):123–126; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27626371 27626371]; doi: [https://dx.doi.org/10.1038/nature19754 10.1038/nature19754]; GPMDB: [http://gpmdb.org/data/keyword/27626371 10]. | ||
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#Schanzenbächer CT, Sambandan S, Langer JD, Schuman EM, (2016) "Nascent Proteome Remodeling following Homeostatic Scaling at Hippocampal Synapses." <i>Neuron</i> <b>92</b>(2):358–371; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27764671 27764671]; doi: [https://dx.doi.org/10.1016/j.neuron.2016.09.058 10.1016/j.neuron.2016.09.058]; GPMDB: [http://gpmdb.org/data/keyword/27764671 80]. | #Schanzenbächer CT, Sambandan S, Langer JD, Schuman EM, (2016) "Nascent Proteome Remodeling following Homeostatic Scaling at Hippocampal Synapses." <i>Neuron</i> <b>92</b>(2):358–371; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27764671 27764671]; doi: [https://dx.doi.org/10.1016/j.neuron.2016.09.058 10.1016/j.neuron.2016.09.058]; GPMDB: [http://gpmdb.org/data/keyword/27764671 80]. | ||
#Yu P, Hahne H, Wilhelm M, Kuster B, (2017) "Ethylene glycol improves electrospray ionization efficiency in bottom-up proteomics." <i>Anal Bioanal Chem</i> <b>409</b>(4):1049–1057; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27766361 27766361]; doi: [https://dx.doi.org/10.1007/s00216-016-0023-x 10.1007/s00216-016-0023-x]; GPMDB: [http://gpmdb.org/data/keyword/27766361 147]. | #Yu P, Hahne H, Wilhelm M, Kuster B, (2017) "Ethylene glycol improves electrospray ionization efficiency in bottom-up proteomics." <i>Anal Bioanal Chem</i> <b>409</b>(4):1049–1057; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27766361 27766361]; doi: [https://dx.doi.org/10.1007/s00216-016-0023-x 10.1007/s00216-016-0023-x]; GPMDB: [http://gpmdb.org/data/keyword/27766361 147]. | ||
+ | #Isogai T, van der Kammen R, Bleijerveld OB, Goerdayal SS, Argenzio E, Altelaar AF, Innocenti M, (2016) "Quantitative Proteomics Illuminates a Functional Interaction between mDia2 and the Proteasome." <i>J Proteome Res</i> <b>15</b>(12):4624–4637; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27769112 27769112]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00718 10.1021/acs.jproteome.6b00718]; GPMDB: [http://gpmdb.org/data/keyword/27769112 44]. | ||
#Peng J, Cao J, Ng FM, Hill J, (2016) "Pseudomonas aeruginosa develops Ciprofloxacin resistance from low to high level with distinctive proteome changes." <i>J Proteomics</i> <b>152</b>:75–87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27771372 27771372]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.10.005 10.1016/j.jprot.2016.10.005]; GPMDB: [http://gpmdb.org/data/keyword/27771372 25]. | #Peng J, Cao J, Ng FM, Hill J, (2016) "Pseudomonas aeruginosa develops Ciprofloxacin resistance from low to high level with distinctive proteome changes." <i>J Proteomics</i> <b>152</b>:75–87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27771372 27771372]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.10.005 10.1016/j.jprot.2016.10.005]; GPMDB: [http://gpmdb.org/data/keyword/27771372 25]. | ||
#Rafiee MR, Girardot C, Sigismondo G, Krijgsveld J, (2016) "Expanding the Circuitry of Pluripotency by Selective Isolation of Chromatin-Associated Proteins." <i>Mol Cell</i> <b>64</b>(3):624–635; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27773674 27773674]; doi: [https://dx.doi.org/10.1016/j.molcel.2016.09.019 10.1016/j.molcel.2016.09.019]; GPMDB: [http://gpmdb.org/data/keyword/27773674 13]. | #Rafiee MR, Girardot C, Sigismondo G, Krijgsveld J, (2016) "Expanding the Circuitry of Pluripotency by Selective Isolation of Chromatin-Associated Proteins." <i>Mol Cell</i> <b>64</b>(3):624–635; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27773674 27773674]; doi: [https://dx.doi.org/10.1016/j.molcel.2016.09.019 10.1016/j.molcel.2016.09.019]; GPMDB: [http://gpmdb.org/data/keyword/27773674 13]. | ||
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#Sheppard C, Blombach F, Belsom A, Schulz S, Daviter T, Smollett K, Mahieu E, Erdmann S, Tinnefeld P, Garrett R, Grohmann D, Rappsilber J, Werner F, (2016) "Repression of RNA polymerase by the archaeo-viral regulator ORF145/RIP." <i>Nat Commun</i> <b>7</b>:13595; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27882920 27882920]; doi: [https://dx.doi.org/10.1038/ncomms13595 10.1038/ncomms13595]; GPMDB: [http://gpmdb.org/data/keyword/27882920 9]. | #Sheppard C, Blombach F, Belsom A, Schulz S, Daviter T, Smollett K, Mahieu E, Erdmann S, Tinnefeld P, Garrett R, Grohmann D, Rappsilber J, Werner F, (2016) "Repression of RNA polymerase by the archaeo-viral regulator ORF145/RIP." <i>Nat Commun</i> <b>7</b>:13595; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27882920 27882920]; doi: [https://dx.doi.org/10.1038/ncomms13595 10.1038/ncomms13595]; GPMDB: [http://gpmdb.org/data/keyword/27882920 9]. | ||
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+ | #Gonneaud A, Jones C, Turgeon N, Lévesque D, Asselin C, Boudreau F, Boisvert FM, (2016) "A SILAC-Based Method for Quantitative Proteomic Analysis of Intestinal Organoids." <i>Sci Rep</i> <b>6</b>:38195; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27901089 27901089]; doi: [https://dx.doi.org/10.1038/srep38195 10.1038/srep38195]; GPMDB: [http://gpmdb.org/data/keyword/27901089 38]. | ||
#Sundberg M, Strage EM, Bergquist J, Holst BS, Ramström M, (2016) "Quantitative and Selective Analysis of Feline Growth Related Proteins Using Parallel Reaction Monitoring High Resolution Mass Spectrometry." <i>PLoS One</i> <b>11</b>(12):e0167138; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27907059 27907059]; doi: [https://dx.doi.org/10.1371/journal.pone.0167138 10.1371/journal.pone.0167138]; GPMDB: [http://gpmdb.org/data/keyword/27907059 3]. | #Sundberg M, Strage EM, Bergquist J, Holst BS, Ramström M, (2016) "Quantitative and Selective Analysis of Feline Growth Related Proteins Using Parallel Reaction Monitoring High Resolution Mass Spectrometry." <i>PLoS One</i> <b>11</b>(12):e0167138; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27907059 27907059]; doi: [https://dx.doi.org/10.1371/journal.pone.0167138 10.1371/journal.pone.0167138]; GPMDB: [http://gpmdb.org/data/keyword/27907059 3]. | ||
#Tatham MH, Cole C, Scullion P, Wilkie R, Westwood NJ, Stark LA, Hay RT, (2016) "A proteomic approach to analyse the aspirin-mediated lysine acetylome." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27913581 27913581]; doi: [https://dx.doi.org/10.1074/mcp.O116.065219 10.1074/mcp.O116.065219]; GPMDB: [http://gpmdb.org/data/keyword/27913581 40]. | #Tatham MH, Cole C, Scullion P, Wilkie R, Westwood NJ, Stark LA, Hay RT, (2016) "A proteomic approach to analyse the aspirin-mediated lysine acetylome." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27913581 27913581]; doi: [https://dx.doi.org/10.1074/mcp.O116.065219 10.1074/mcp.O116.065219]; GPMDB: [http://gpmdb.org/data/keyword/27913581 40]. | ||
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#Godfrey M, Touati SA, Kataria M, Jones A, Snijders AP, Uhlmann F, (2017) "PP2A<sup>Cdc55</sup> Phosphatase Imposes Ordered Cell-Cycle Phosphorylation by Opposing Threonine Phosphorylation." <i>Mol Cell</i> <b>65</b>(3):393–402.e3; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28132839 28132839]; doi: [https://dx.doi.org/10.1016/j.molcel.2016.12.018 10.1016/j.molcel.2016.12.018]; GPMDB: [http://gpmdb.org/data/keyword/28132839 120]. | #Godfrey M, Touati SA, Kataria M, Jones A, Snijders AP, Uhlmann F, (2017) "PP2A<sup>Cdc55</sup> Phosphatase Imposes Ordered Cell-Cycle Phosphorylation by Opposing Threonine Phosphorylation." <i>Mol Cell</i> <b>65</b>(3):393–402.e3; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28132839 28132839]; doi: [https://dx.doi.org/10.1016/j.molcel.2016.12.018 10.1016/j.molcel.2016.12.018]; GPMDB: [http://gpmdb.org/data/keyword/28132839 120]. | ||
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+ | #Abe Y, Nagano M, Tada A, Adachi J, Tomonaga T, (2017) "Deep Phosphotyrosine Proteomics by Optimization of Phosphotyrosine Enrichment and MS/MS Parameters." <i>J Proteome Res</i> <b>16</b>(2):1077–1086; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28152594 28152594]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00576 10.1021/acs.jproteome.6b00576]; GPMDB: [http://gpmdb.org/data/keyword/28152594 41]. | ||
#Jung SY, Choi JM, Rousseaux MW, Malovannaya A, Kim JJ, Kutzera J, Wang Y, Huang Y, Zhu W, Maity S, Zoghbi HY, Qin J, (2017) "An anatomically resolved mouse brain proteome reveals Parkinson disease-relevant pathways." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28153913 28153913]; doi: [https://dx.doi.org/10.1074/mcp.M116.061440 10.1074/mcp.M116.061440]; GPMDB: [http://gpmdb.org/data/keyword/28153913 610]. | #Jung SY, Choi JM, Rousseaux MW, Malovannaya A, Kim JJ, Kutzera J, Wang Y, Huang Y, Zhu W, Maity S, Zoghbi HY, Qin J, (2017) "An anatomically resolved mouse brain proteome reveals Parkinson disease-relevant pathways." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28153913 28153913]; doi: [https://dx.doi.org/10.1074/mcp.M116.061440 10.1074/mcp.M116.061440]; GPMDB: [http://gpmdb.org/data/keyword/28153913 610]. | ||
#Diering GH, Nirujogi RS, Roth RH, Worley PF, Pandey A, Huganir RL, (2017) "Homer1a drives homeostatic scaling-down of excitatory synapses during sleep." <i>Science</i> <b>355</b>(6324):511–515; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28154077 28154077]; doi: [https://dx.doi.org/10.1126/science.aai8355 10.1126/science.aai8355]; GPMDB: [http://gpmdb.org/data/keyword/28154077 25]. | #Diering GH, Nirujogi RS, Roth RH, Worley PF, Pandey A, Huganir RL, (2017) "Homer1a drives homeostatic scaling-down of excitatory synapses during sleep." <i>Science</i> <b>355</b>(6324):511–515; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28154077 28154077]; doi: [https://dx.doi.org/10.1126/science.aai8355 10.1126/science.aai8355]; GPMDB: [http://gpmdb.org/data/keyword/28154077 25]. | ||
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#Tahir A, Bileck A, Muqaku B, Niederstaetter L, Kreutz D, Mayer RL, Wolrab D, Meier SM, Slany A, Gerner C, (2017) "Combined Proteome and Eicosanoid Profiling Approach for Revealing Implications of Human Fibroblasts in Chronic Inflammation." <i>Anal Chem</i> <b>89</b>(3):1945–1954; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28208246 28208246]; doi: [https://dx.doi.org/10.1021/acs.analchem.6b04433 10.1021/acs.analchem.6b04433]; GPMDB: [http://gpmdb.org/data/keyword/28208246 32]. | #Tahir A, Bileck A, Muqaku B, Niederstaetter L, Kreutz D, Mayer RL, Wolrab D, Meier SM, Slany A, Gerner C, (2017) "Combined Proteome and Eicosanoid Profiling Approach for Revealing Implications of Human Fibroblasts in Chronic Inflammation." <i>Anal Chem</i> <b>89</b>(3):1945–1954; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28208246 28208246]; doi: [https://dx.doi.org/10.1021/acs.analchem.6b04433 10.1021/acs.analchem.6b04433]; GPMDB: [http://gpmdb.org/data/keyword/28208246 32]. | ||
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#Al Shweiki MR, Mönchgesang S, Majovsky P, Thieme D, Trutschel D, Hoehenwarter W, (2017) "Assessment of Label-Free Quantification in Discovery Proteomics and Impact of Technological Factors and Natural Variability of Protein Abundance." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28217993 28217993]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00645 10.1021/acs.jproteome.6b00645]; GPMDB: [http://gpmdb.org/data/keyword/28217993 54]. | #Al Shweiki MR, Mönchgesang S, Majovsky P, Thieme D, Trutschel D, Hoehenwarter W, (2017) "Assessment of Label-Free Quantification in Discovery Proteomics and Impact of Technological Factors and Natural Variability of Protein Abundance." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28217993 28217993]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00645 10.1021/acs.jproteome.6b00645]; GPMDB: [http://gpmdb.org/data/keyword/28217993 54]. | ||
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#Langley SR, Willeit K, Didangelos A, Matic LP, Skroblin P, Barallobre-Barreiro J, Lengquist M, Rungger G, Kapustin A, Kedenko L, Molenaar C, Lu R, Barwari T, Suna G, Yin X, Iglseder B, Paulweber B, Willeit P, Shalhoub J, Pasterkamp G, Davies AH, Monaco C, Hedin U, Shanahan CM, Willeit J, Kiechl S, Mayr M, (2017) "Extracellular matrix proteomics identifies molecular signature of symptomatic carotid plaques." <i>J Clin Invest</i> <b>127</b>(4):1546–1560; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28319050 28319050]; doi: [https://dx.doi.org/10.1172/JCI86924 10.1172/JCI86924]; GPMDB: [http://gpmdb.org/data/keyword/28319050 936]. | #Langley SR, Willeit K, Didangelos A, Matic LP, Skroblin P, Barallobre-Barreiro J, Lengquist M, Rungger G, Kapustin A, Kedenko L, Molenaar C, Lu R, Barwari T, Suna G, Yin X, Iglseder B, Paulweber B, Willeit P, Shalhoub J, Pasterkamp G, Davies AH, Monaco C, Hedin U, Shanahan CM, Willeit J, Kiechl S, Mayr M, (2017) "Extracellular matrix proteomics identifies molecular signature of symptomatic carotid plaques." <i>J Clin Invest</i> <b>127</b>(4):1546–1560; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28319050 28319050]; doi: [https://dx.doi.org/10.1172/JCI86924 10.1172/JCI86924]; GPMDB: [http://gpmdb.org/data/keyword/28319050 936]. | ||
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#Nathan A, Reinhardt P, Kruspe D, Jörß T, Groth M, Nolte H, Habenicht A, Herrmann J, Holschbach V, Toth B, Krüger M, Wang ZQ, Platzer M, Englert C, (2017) "The Wilms tumor protein Wt1 contributes to female fertility by regulating oviductal proteostasis." <i>Hum Mol Genet</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28334862 28334862]; doi: [https://dx.doi.org/10.1093/hmg/ddx075 10.1093/hmg/ddx075]; GPMDB: [http://gpmdb.org/data/keyword/28334862 48]. | #Nathan A, Reinhardt P, Kruspe D, Jörß T, Groth M, Nolte H, Habenicht A, Herrmann J, Holschbach V, Toth B, Krüger M, Wang ZQ, Platzer M, Englert C, (2017) "The Wilms tumor protein Wt1 contributes to female fertility by regulating oviductal proteostasis." <i>Hum Mol Genet</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28334862 28334862]; doi: [https://dx.doi.org/10.1093/hmg/ddx075 10.1093/hmg/ddx075]; GPMDB: [http://gpmdb.org/data/keyword/28334862 48]. | ||
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#Smallwood HS, Duan S, Morfouace M, Rezinciuc S, Shulkin BL, Shelat A, Zink EE, Milasta S, Bajracharya R, Oluwaseum AJ, Roussel MF, Green DR, Pasa-Tolic L, Thomas PG, (2017) "Targeting Metabolic Reprogramming by Influenza Infection for Therapeutic Intervention." <i>Cell Rep</i> <b>19</b>(8):1640–1653; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28538182 28538182]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.04.039 10.1016/j.celrep.2017.04.039]; GPMDB: [http://gpmdb.org/data/keyword/28538182 11]. | #Smallwood HS, Duan S, Morfouace M, Rezinciuc S, Shulkin BL, Shelat A, Zink EE, Milasta S, Bajracharya R, Oluwaseum AJ, Roussel MF, Green DR, Pasa-Tolic L, Thomas PG, (2017) "Targeting Metabolic Reprogramming by Influenza Infection for Therapeutic Intervention." <i>Cell Rep</i> <b>19</b>(8):1640–1653; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28538182 28538182]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.04.039 10.1016/j.celrep.2017.04.039]; GPMDB: [http://gpmdb.org/data/keyword/28538182 11]. | ||
#Elmasri WA, Zhu R, Peng W, Al-Hariri M, Kobeissy F, Tran P, Hamood AN, Hegazy MF, Paré PW, Mechref Y, (2017) "Multitargeted Flavonoid Inhibition of the Pathogenic Bacterium Staphylococcus aureus: A Proteomic Characterization." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28541047 28541047]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00137 10.1021/acs.jproteome.7b00137]; GPMDB: [http://gpmdb.org/data/keyword/28541047 12]. | #Elmasri WA, Zhu R, Peng W, Al-Hariri M, Kobeissy F, Tran P, Hamood AN, Hegazy MF, Paré PW, Mechref Y, (2017) "Multitargeted Flavonoid Inhibition of the Pathogenic Bacterium Staphylococcus aureus: A Proteomic Characterization." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28541047 28541047]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00137 10.1021/acs.jproteome.7b00137]; GPMDB: [http://gpmdb.org/data/keyword/28541047 12]. | ||
+ | #Fijalkowska D, Verbruggen S, Ndah E, Jonckheere V, Menschaert G, Van Damme P, (2017) "eIF1 modulates the recognition of suboptimal translation initiation sites and steers gene expression via uORFs." <i>Nucleic Acids Res</i> <b>45</b>(13):7997–8013; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28541577 28541577]; doi: [https://dx.doi.org/10.1093/nar/gkx469 10.1093/nar/gkx469]; GPMDB: [http://gpmdb.org/data/keyword/28541577 19]. | ||
#Kume K, Cantwell H, Neumann FR, Jones AW, Snijders AP, Nurse P, (2017) "A systematic genomic screen implicates nucleocytoplasmic transport and membrane growth in nuclear size control." <i>PLoS Genet</i> <b>13</b>(5):e1006767; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28545058 28545058]; doi: [https://dx.doi.org/10.1371/journal.pgen.1006767 10.1371/journal.pgen.1006767]; GPMDB: [http://gpmdb.org/data/keyword/28545058 192]. | #Kume K, Cantwell H, Neumann FR, Jones AW, Snijders AP, Nurse P, (2017) "A systematic genomic screen implicates nucleocytoplasmic transport and membrane growth in nuclear size control." <i>PLoS Genet</i> <b>13</b>(5):e1006767; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28545058 28545058]; doi: [https://dx.doi.org/10.1371/journal.pgen.1006767 10.1371/journal.pgen.1006767]; GPMDB: [http://gpmdb.org/data/keyword/28545058 192]. | ||
#Meier SM, Kreutz D, Winter L, Klose MHM, Cseh K, Weiss T, Bileck A, Alte B, Mader JC, Jana S, Chatterjee A, Bhattacharyya A, Hejl M, Jakupec MA, Heffeter P, Berger W, Hartinger CG, Keppler BK, Wiche G, Gerner C, (2017) "An Organoruthenium Anticancer Agent Shows Unexpected Target Selectivity For Plectin." <i>Angew Chem Int Ed Engl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28547791 28547791]; doi: [https://dx.doi.org/10.1002/anie.201702242 10.1002/anie.201702242]; GPMDB: [http://gpmdb.org/data/keyword/28547791 4]. | #Meier SM, Kreutz D, Winter L, Klose MHM, Cseh K, Weiss T, Bileck A, Alte B, Mader JC, Jana S, Chatterjee A, Bhattacharyya A, Hejl M, Jakupec MA, Heffeter P, Berger W, Hartinger CG, Keppler BK, Wiche G, Gerner C, (2017) "An Organoruthenium Anticancer Agent Shows Unexpected Target Selectivity For Plectin." <i>Angew Chem Int Ed Engl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28547791 28547791]; doi: [https://dx.doi.org/10.1002/anie.201702242 10.1002/anie.201702242]; GPMDB: [http://gpmdb.org/data/keyword/28547791 4]. | ||
#Hou J, Li Z, Zhong W, Hao Q, Lei L, Wang L, Zhao D, Xu P, Zhou Y, Wang Y, Xu T, (2017) "Temporal Transcriptomic and Proteomic Landscapes of Deteriorating Pancreatic Islets in Type 2 Diabetic Rats." <i>Diabetes</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28559245 28559245]; doi: [https://dx.doi.org/10.2337/db16-1305 10.2337/db16-1305]; GPMDB: [http://gpmdb.org/data/keyword/28559245 12]. | #Hou J, Li Z, Zhong W, Hao Q, Lei L, Wang L, Zhao D, Xu P, Zhou Y, Wang Y, Xu T, (2017) "Temporal Transcriptomic and Proteomic Landscapes of Deteriorating Pancreatic Islets in Type 2 Diabetic Rats." <i>Diabetes</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28559245 28559245]; doi: [https://dx.doi.org/10.2337/db16-1305 10.2337/db16-1305]; GPMDB: [http://gpmdb.org/data/keyword/28559245 12]. | ||
#Sanchez-Quiles V, Akimov V, Osinalde N, Francavilla C, Puglia M, Barrio-Hernandez I, Kratchmarova I, Olsen JV, Blagoev B, (2017) "CYLD deubiquitinase is necessary for proper ubiquitination and degradation of the epidermal growth factor receptor." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28572092 28572092]; doi: [https://dx.doi.org/10.1074/mcp.M116.066423 10.1074/mcp.M116.066423]; GPMDB: [http://gpmdb.org/data/keyword/28572092 108]. | #Sanchez-Quiles V, Akimov V, Osinalde N, Francavilla C, Puglia M, Barrio-Hernandez I, Kratchmarova I, Olsen JV, Blagoev B, (2017) "CYLD deubiquitinase is necessary for proper ubiquitination and degradation of the epidermal growth factor receptor." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28572092 28572092]; doi: [https://dx.doi.org/10.1074/mcp.M116.066423 10.1074/mcp.M116.066423]; GPMDB: [http://gpmdb.org/data/keyword/28572092 108]. | ||
+ | #Bj Rås KØ, Sousa MML, Sharma A, Fonseca DM, S Gaard CK, Bj Rås M, Otterlei M, (2017) "Monitoring of the spatial and temporal dynamics of BER/SSBR pathway proteins, including MYH, UNG2, MPG, NTH1 and NEIL1-3, during DNA replication." <i>Nucleic Acids Res</i> <b>45</b>(14):8291–8301; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28575236 28575236]; doi: [https://dx.doi.org/10.1093/nar/gkx476 10.1093/nar/gkx476]; GPMDB: [http://gpmdb.org/data/keyword/28575236 31]. | ||
#Obermann J, Priglinger CS, Merl-Pham J, Geerlof A, Priglinger S, Götz M, Hauck SM, (2017) "Proteome-wide identification of glycosylation-dependent interactors of Galectin-1 and Galectin-3 on mesenchymal retinal pigment epithelial cells." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28576849 28576849]; doi: [https://dx.doi.org/10.1074/mcp.M116.066381 10.1074/mcp.M116.066381]; GPMDB: [http://gpmdb.org/data/keyword/28576849 193]. | #Obermann J, Priglinger CS, Merl-Pham J, Geerlof A, Priglinger S, Götz M, Hauck SM, (2017) "Proteome-wide identification of glycosylation-dependent interactors of Galectin-1 and Galectin-3 on mesenchymal retinal pigment epithelial cells." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28576849 28576849]; doi: [https://dx.doi.org/10.1074/mcp.M116.066381 10.1074/mcp.M116.066381]; GPMDB: [http://gpmdb.org/data/keyword/28576849 193]. | ||
#Sun C, De Mello V, Mohamed A, Ortuste Quiroga HP, Garcia-Munoz A, Al Bloshi A, Tremblay AM, von Kriegsheim A, Collie-Duguid E, Vargesson N, Matallanas D, Wackerhage H, Zammit PS, (2017) "Common and Distinctive Functions of the Hippo Effectors Taz and Yap in Skeletal Muscle Stem Cell Function." <i>Stem Cells</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28589555 28589555]; doi: [https://dx.doi.org/10.1002/stem.2652 10.1002/stem.2652]; GPMDB: [http://gpmdb.org/data/keyword/28589555 36]. | #Sun C, De Mello V, Mohamed A, Ortuste Quiroga HP, Garcia-Munoz A, Al Bloshi A, Tremblay AM, von Kriegsheim A, Collie-Duguid E, Vargesson N, Matallanas D, Wackerhage H, Zammit PS, (2017) "Common and Distinctive Functions of the Hippo Effectors Taz and Yap in Skeletal Muscle Stem Cell Function." <i>Stem Cells</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28589555 28589555]; doi: [https://dx.doi.org/10.1002/stem.2652 10.1002/stem.2652]; GPMDB: [http://gpmdb.org/data/keyword/28589555 36]. | ||
#Zhang J, Lu S, Zhou Y, Meng K, Chen Z, Cui Y, Shi Y, Wang T, He QY, (2017) "Motile hepatocellular carcinoma cells preferentially secret sugar metabolism regulatory proteins via exosomes." <i>Proteomics</i> <b>17</b>(13-14):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28590090 28590090]; doi: [https://dx.doi.org/10.1002/pmic.201700103 10.1002/pmic.201700103]; GPMDB: [http://gpmdb.org/data/keyword/28590090 6]. | #Zhang J, Lu S, Zhou Y, Meng K, Chen Z, Cui Y, Shi Y, Wang T, He QY, (2017) "Motile hepatocellular carcinoma cells preferentially secret sugar metabolism regulatory proteins via exosomes." <i>Proteomics</i> <b>17</b>(13-14):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28590090 28590090]; doi: [https://dx.doi.org/10.1002/pmic.201700103 10.1002/pmic.201700103]; GPMDB: [http://gpmdb.org/data/keyword/28590090 6]. | ||
+ | #Jensen SR, Schoof EM, Wheeler SE, Hvid H, Ahnfelt-Rønne J, Hansen BF, Nishimura E, Olsen GS, Kislinger T, Brubaker PL, (2017) "Quantitative Proteomics of Intestinal Mucosa From Male Mice Lacking Intestinal Epithelial Insulin Receptors." <i>Endocrinology</i> <b>158</b>(8):2470–2485; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28591806 28591806]; doi: [https://dx.doi.org/10.1210/en.2017-00194 10.1210/en.2017-00194]; GPMDB: [http://gpmdb.org/data/keyword/28591806 10]. | ||
#Bekker-Jensen DB, Kelstrup CD, Batth TS, Larsen SC, Haldrup C, Bramsen JB, Sørensen KD, Høyer S, Ørntoft TF, Andersen CL, Nielsen ML, Olsen JV, (2017) "An Optimized Shotgun Strategy for the Rapid Generation of Comprehensive Human Proteomes." <i>Cell Syst</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28601559 28601559]; doi: [https://dx.doi.org/10.1016/j.cels.2017.05.009 10.1016/j.cels.2017.05.009]; GPMDB: [http://gpmdb.org/data/keyword/28601559 93]. | #Bekker-Jensen DB, Kelstrup CD, Batth TS, Larsen SC, Haldrup C, Bramsen JB, Sørensen KD, Høyer S, Ørntoft TF, Andersen CL, Nielsen ML, Olsen JV, (2017) "An Optimized Shotgun Strategy for the Rapid Generation of Comprehensive Human Proteomes." <i>Cell Syst</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28601559 28601559]; doi: [https://dx.doi.org/10.1016/j.cels.2017.05.009 10.1016/j.cels.2017.05.009]; GPMDB: [http://gpmdb.org/data/keyword/28601559 93]. | ||
+ | #Haas TL, Sciuto MR, Brunetto L, Valvo C, Signore M, Fiori ME, di Martino S, Giannetti S, Morgante L, Boe A, Patrizii M, Warnken U, Schnölzer M, Ciolfi A, Di Stefano C, Biffoni M, Ricci-Vitiani L, Pallini R, De Maria R, (2017) "Integrin α7 Is a Functional Marker and Potential Therapeutic Target in Glioblastoma." <i>Cell Stem Cell</i> <b>21</b>(1):35–50.e9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28602620 28602620]; doi: [https://dx.doi.org/10.1016/j.stem.2017.04.009 10.1016/j.stem.2017.04.009]; GPMDB: [http://gpmdb.org/data/keyword/28602620 3]. | ||
#Lapek JD Jr, Lewinski MK, Wozniak JM, Guatelli J, Gonzalez DJ, (2017) "Quantitative Temporal Viromics of an Inducible HIV-1 Model Yields Insight to Global Host Targets and Phospho-Dynamics Associated with Vpr." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28606917 28606917]; doi: [https://dx.doi.org/10.1074/mcp.M116.066019 10.1074/mcp.M116.066019]; GPMDB: [http://gpmdb.org/data/keyword/28606917 4]. | #Lapek JD Jr, Lewinski MK, Wozniak JM, Guatelli J, Gonzalez DJ, (2017) "Quantitative Temporal Viromics of an Inducible HIV-1 Model Yields Insight to Global Host Targets and Phospho-Dynamics Associated with Vpr." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28606917 28606917]; doi: [https://dx.doi.org/10.1074/mcp.M116.066019 10.1074/mcp.M116.066019]; GPMDB: [http://gpmdb.org/data/keyword/28606917 4]. | ||
#Brocard L, Immel F, Coulon D, Esnay N, Tuphile K, Pascal S, Claverol S, Fouillen L, Bessoule JJ, Bréhélin C, (2017) "Proteomic Analysis of Lipid Droplets from Arabidopsis Aging Leaves Brings New Insight into Their Biogenesis and Functions." <i>Front Plant Sci</i> <b>8</b>:894; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28611809 28611809]; doi: [https://dx.doi.org/10.3389/fpls.2017.00894 10.3389/fpls.2017.00894]; GPMDB: [http://gpmdb.org/data/keyword/28611809 3]. | #Brocard L, Immel F, Coulon D, Esnay N, Tuphile K, Pascal S, Claverol S, Fouillen L, Bessoule JJ, Bréhélin C, (2017) "Proteomic Analysis of Lipid Droplets from Arabidopsis Aging Leaves Brings New Insight into Their Biogenesis and Functions." <i>Front Plant Sci</i> <b>8</b>:894; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28611809 28611809]; doi: [https://dx.doi.org/10.3389/fpls.2017.00894 10.3389/fpls.2017.00894]; GPMDB: [http://gpmdb.org/data/keyword/28611809 3]. | ||
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#Plenker D, Riedel M, Brägelmann J, Dammert MA, Chauhan R, Knowles PP, Lorenz C, Keul M, Bührmann M, Pagel O, Tischler V, Scheel AH, Schütte D, Song Y, Stark J, Mrugalla F, Alber Y, Richters A, Engel J, Leenders F, Heuckmann JM, Wolf J, Diebold J, Pall G, Peifer M, Aerts M, Gevaert K, Zahedi RP, Buettner R, Shokat KM, McDonald NQ, Kast SM, Gautschi O, Thomas RK, Sos ML, (2017) "Drugging the catalytically inactive state of RET kinase in RET-rearranged tumors." <i>Sci Transl Med</i> <b>9</b>(394):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28615362 28615362]; doi: [https://dx.doi.org/10.1126/scitranslmed.aah6144 10.1126/scitranslmed.aah6144]; GPMDB: [http://gpmdb.org/data/keyword/28615362 17]. | #Plenker D, Riedel M, Brägelmann J, Dammert MA, Chauhan R, Knowles PP, Lorenz C, Keul M, Bührmann M, Pagel O, Tischler V, Scheel AH, Schütte D, Song Y, Stark J, Mrugalla F, Alber Y, Richters A, Engel J, Leenders F, Heuckmann JM, Wolf J, Diebold J, Pall G, Peifer M, Aerts M, Gevaert K, Zahedi RP, Buettner R, Shokat KM, McDonald NQ, Kast SM, Gautschi O, Thomas RK, Sos ML, (2017) "Drugging the catalytically inactive state of RET kinase in RET-rearranged tumors." <i>Sci Transl Med</i> <b>9</b>(394):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28615362 28615362]; doi: [https://dx.doi.org/10.1126/scitranslmed.aah6144 10.1126/scitranslmed.aah6144]; GPMDB: [http://gpmdb.org/data/keyword/28615362 17]. | ||
#Marx H, Hahne H, Ulbrich SE, Schnieke A, Rottmann O, Frishman D, Kuster B, (2017) "Annotation of the Domestic Pig Genome by Quantitative Proteogenomics." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28625053 28625053]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00184 10.1021/acs.jproteome.7b00184]; GPMDB: [http://gpmdb.org/data/keyword/28625053 181]. | #Marx H, Hahne H, Ulbrich SE, Schnieke A, Rottmann O, Frishman D, Kuster B, (2017) "Annotation of the Domestic Pig Genome by Quantitative Proteogenomics." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28625053 28625053]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00184 10.1021/acs.jproteome.7b00184]; GPMDB: [http://gpmdb.org/data/keyword/28625053 181]. | ||
+ | #Wang J, Mouradov D, Wang X, Jorissen RN, Chambers MC, Zimmerman LJ, Vasaikar S, Love CG, Li S, Lowes K, Leuchowius KJ, Jousset H, Weinstock J, Yau C, Mariadason J, Shi Z, Ban Y, Chen X, Coffey RJC, Slebos RJC, Burgess AW, Liebler DC, Zhang B, Sieber OM, (2017) "Colorectal Cancer Cell Line Proteomes are Representative of Primary Tumors and Predict Drug Sensitivity." <i>Gastroenterology</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28625833 28625833]; doi: [https://dx.doi.org/10.1053/j.gastro.2017.06.008 10.1053/j.gastro.2017.06.008]; GPMDB: [http://gpmdb.org/data/keyword/28625833 44]. | ||
#Taleb RSZ, Moez P, Younan D, Eisenacher M, Tenbusch M, Sitek B, Bracht T, (2017) "Quantitative proteome analysis of plasma microparticles for the characterization of HCV-induced hepatic cirrhosis and hepatocellular carcinoma." <i>Proteomics Clin Appl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28626882 28626882]; doi: [https://dx.doi.org/10.1002/prca.201700014 10.1002/prca.201700014]; GPMDB: [http://gpmdb.org/data/keyword/28626882 56]. | #Taleb RSZ, Moez P, Younan D, Eisenacher M, Tenbusch M, Sitek B, Bracht T, (2017) "Quantitative proteome analysis of plasma microparticles for the characterization of HCV-induced hepatic cirrhosis and hepatocellular carcinoma." <i>Proteomics Clin Appl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28626882 28626882]; doi: [https://dx.doi.org/10.1002/prca.201700014 10.1002/prca.201700014]; GPMDB: [http://gpmdb.org/data/keyword/28626882 56]. | ||
#Qin G, Dang M, Gao H, Wang H, Luo F, Chen R, (2017) "Deciphering the protein-protein interaction network regulating hepatocellular carcinoma metastasis." <i>Biochim Biophys Acta</i> <b>1865</b>(9):1114–1122; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28627476 28627476]; doi: [https://dx.doi.org/10.1016/j.bbapap.2017.06.005 10.1016/j.bbapap.2017.06.005]; GPMDB: [http://gpmdb.org/data/keyword/28627476 6]. | #Qin G, Dang M, Gao H, Wang H, Luo F, Chen R, (2017) "Deciphering the protein-protein interaction network regulating hepatocellular carcinoma metastasis." <i>Biochim Biophys Acta</i> <b>1865</b>(9):1114–1122; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28627476 28627476]; doi: [https://dx.doi.org/10.1016/j.bbapap.2017.06.005 10.1016/j.bbapap.2017.06.005]; GPMDB: [http://gpmdb.org/data/keyword/28627476 6]. | ||
+ | #Sung E, Kwon OK, Lee JM, Lee S, (2017) "Proteomics approach to identify novel metastatic bone markers from the secretome of PC-3 prostate cancer cells." <i>Electrophoresis</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28627741 28627741]; doi: [https://dx.doi.org/10.1002/elps.201700052 10.1002/elps.201700052]; GPMDB: [http://gpmdb.org/data/keyword/28627741 2]. | ||
#Loke I, Østergaard O, Heegaard NHH, Packer NH, Thaysen-Andersen M, (2017) "Paucimannose-Rich <i>N</i>-glycosylation of Spatiotemporally Regulated Human Neutrophil Elastase Modulates Its Immune Functions." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28630087 28630087]; doi: [https://dx.doi.org/10.1074/mcp.M116.066746 10.1074/mcp.M116.066746]; GPMDB: [http://gpmdb.org/data/keyword/28630087 118]. | #Loke I, Østergaard O, Heegaard NHH, Packer NH, Thaysen-Andersen M, (2017) "Paucimannose-Rich <i>N</i>-glycosylation of Spatiotemporally Regulated Human Neutrophil Elastase Modulates Its Immune Functions." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28630087 28630087]; doi: [https://dx.doi.org/10.1074/mcp.M116.066746 10.1074/mcp.M116.066746]; GPMDB: [http://gpmdb.org/data/keyword/28630087 118]. | ||
#Feil G, Horres R, Schulte J, Mack AF, Petzoldt S, Arnold C, Meng C, Jost L, Boxleitner J, Kiessling-Wolf N, Serbest E, Helm D, Kuster B, Hartmann I, Korff T, Hahne H, (2017) "Bacterial cellulose shifts transcriptome and proteome of cultured endothelial cells towards native differentiation." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28637836 28637836]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000001 10.1074/mcp.RA117.000001]; GPMDB: [http://gpmdb.org/data/keyword/28637836 2]. | #Feil G, Horres R, Schulte J, Mack AF, Petzoldt S, Arnold C, Meng C, Jost L, Boxleitner J, Kiessling-Wolf N, Serbest E, Helm D, Kuster B, Hartmann I, Korff T, Hahne H, (2017) "Bacterial cellulose shifts transcriptome and proteome of cultured endothelial cells towards native differentiation." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28637836 28637836]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000001 10.1074/mcp.RA117.000001]; GPMDB: [http://gpmdb.org/data/keyword/28637836 2]. | ||
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#Flury V, Georgescu PR, Iesmantavicius V, Shimada Y, Kuzdere T, Braun S, Bühler M, (2017) "The Histone Acetyltransferase Mst2 Protects Active Chromatin from Epigenetic Silencing by Acetylating the Ubiquitin Ligase Brl1." <i>Mol Cell</i> <b>67</b>(2):294–307.e9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28648780 28648780]; doi: [https://dx.doi.org/10.1016/j.molcel.2017.05.026 10.1016/j.molcel.2017.05.026]; GPMDB: [http://gpmdb.org/data/keyword/28648780 50]. | #Flury V, Georgescu PR, Iesmantavicius V, Shimada Y, Kuzdere T, Braun S, Bühler M, (2017) "The Histone Acetyltransferase Mst2 Protects Active Chromatin from Epigenetic Silencing by Acetylating the Ubiquitin Ligase Brl1." <i>Mol Cell</i> <b>67</b>(2):294–307.e9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28648780 28648780]; doi: [https://dx.doi.org/10.1016/j.molcel.2017.05.026 10.1016/j.molcel.2017.05.026]; GPMDB: [http://gpmdb.org/data/keyword/28648780 50]. | ||
#Morgenstern M, Stiller SB, Lübbert P, Peikert CD, Dannenmaier S, Drepper F, Weill U, Höß P, Feuerstein R, Gebert M, Bohnert M, van der Laan M, Schuldiner M, Schütze C, Oeljeklaus S, Pfanner N, Wiedemann N, Warscheid B, (2017) "Definition of a High-Confidence Mitochondrial Proteome at Quantitative Scale." <i>Cell Rep</i> <b>19</b>(13):2836–2852; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28658629 28658629]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.06.014 10.1016/j.celrep.2017.06.014]; GPMDB: [http://gpmdb.org/data/keyword/28658629 697]. | #Morgenstern M, Stiller SB, Lübbert P, Peikert CD, Dannenmaier S, Drepper F, Weill U, Höß P, Feuerstein R, Gebert M, Bohnert M, van der Laan M, Schuldiner M, Schütze C, Oeljeklaus S, Pfanner N, Wiedemann N, Warscheid B, (2017) "Definition of a High-Confidence Mitochondrial Proteome at Quantitative Scale." <i>Cell Rep</i> <b>19</b>(13):2836–2852; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28658629 28658629]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.06.014 10.1016/j.celrep.2017.06.014]; GPMDB: [http://gpmdb.org/data/keyword/28658629 697]. | ||
+ | #Offenburger SL, Bensaddek D, Murillo AB, Lamond AI, Gartner A, (2017) "Comparative genetic, proteomic and phosphoproteomic analysis of C. elegans embryos with a focus on ham-1/STOX and pig-1/MELK in dopaminergic neuron development." <i>Sci Rep</i> <b>7</b>(1):4314; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28659600 28659600]; doi: [https://dx.doi.org/10.1038/s41598-017-04375-4 10.1038/s41598-017-04375-4]; GPMDB: [http://gpmdb.org/data/keyword/28659600 289]. | ||
#Govaert E, Van Steendam K, Willems S, Vossaert L, Dhaenens M, Deforce D, (2017) "Comparison of fractionation proteomics for local SWATH library building." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28664598 28664598]; doi: [https://dx.doi.org/10.1002/pmic.201700052 10.1002/pmic.201700052]; GPMDB: [http://gpmdb.org/data/keyword/28664598 4]. | #Govaert E, Van Steendam K, Willems S, Vossaert L, Dhaenens M, Deforce D, (2017) "Comparison of fractionation proteomics for local SWATH library building." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28664598 28664598]; doi: [https://dx.doi.org/10.1002/pmic.201700052 10.1002/pmic.201700052]; GPMDB: [http://gpmdb.org/data/keyword/28664598 4]. | ||
#Sap KA, Bezstarosti K, Dekkers DHW, Voets O, Demmers JAA, (2017) "Quantitative Proteomics Reveals Extensive Changes in the Ubiquitinome after Perturbation of the Proteasome by Targeted dsRNA-Mediated Subunit Knockdown in Drosophila." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28665616 28665616]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00156 10.1021/acs.jproteome.7b00156]; GPMDB: [http://gpmdb.org/data/keyword/28665616 290]. | #Sap KA, Bezstarosti K, Dekkers DHW, Voets O, Demmers JAA, (2017) "Quantitative Proteomics Reveals Extensive Changes in the Ubiquitinome after Perturbation of the Proteasome by Targeted dsRNA-Mediated Subunit Knockdown in Drosophila." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28665616 28665616]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00156 10.1021/acs.jproteome.7b00156]; GPMDB: [http://gpmdb.org/data/keyword/28665616 290]. | ||
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#Panizza E, Branca RMM, Oliviusson P, Orre LM, Lehtiö J, (2017) "Isoelectric point-based fractionation by HiRIEF coupled to LC-MS allows for in-depth quantitative analysis of the phosphoproteome." <i>Sci Rep</i> <b>7</b>(1):4513; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28674419 28674419]; doi: [https://dx.doi.org/10.1038/s41598-017-04798-z 10.1038/s41598-017-04798-z]; GPMDB: [http://gpmdb.org/data/keyword/28674419 133]. | #Panizza E, Branca RMM, Oliviusson P, Orre LM, Lehtiö J, (2017) "Isoelectric point-based fractionation by HiRIEF coupled to LC-MS allows for in-depth quantitative analysis of the phosphoproteome." <i>Sci Rep</i> <b>7</b>(1):4513; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28674419 28674419]; doi: [https://dx.doi.org/10.1038/s41598-017-04798-z 10.1038/s41598-017-04798-z]; GPMDB: [http://gpmdb.org/data/keyword/28674419 133]. | ||
#Yang J, Yin L, Lessner FH, Nakayasu ES, Payne SH, Fixen KR, Gallagher L, Harwood CS, (2017) "Genes essential for phototrophic growth by a purple alphaproteobacterium." <i>Environ Microbiol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28677146 28677146]; doi: [https://dx.doi.org/10.1111/1462-2920.13852 10.1111/1462-2920.13852]; GPMDB: [http://gpmdb.org/data/keyword/28677146 6]. | #Yang J, Yin L, Lessner FH, Nakayasu ES, Payne SH, Fixen KR, Gallagher L, Harwood CS, (2017) "Genes essential for phototrophic growth by a purple alphaproteobacterium." <i>Environ Microbiol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28677146 28677146]; doi: [https://dx.doi.org/10.1111/1462-2920.13852 10.1111/1462-2920.13852]; GPMDB: [http://gpmdb.org/data/keyword/28677146 6]. | ||
+ | #Soman KV, Stafford SJ, Pazdrak K, Wu Z, Luo X, White WI, Wiktorowicz JE, Calhoun WJ, Kurosky A, (2017) "Activation of Human Peripheral Blood Eosinophils by Cytokines in a Comparative Time-Course Proteomic/Phosphoproteomic Study." <i>J Proteome Res</i> <b>16</b>(8):2663–2679; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28679203 28679203]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00367 10.1021/acs.jproteome.6b00367]; GPMDB: [http://gpmdb.org/data/keyword/28679203 47]. | ||
#Miikkulainen P, Högel H, Rantanen K, Suomi T, Kouvonen P, Elo LL, Jaakkola PM, (2017) "HIF prolyl hydroxylase PHD3 regulates translational machinery and glucose metabolism in clear cell renal cell carcinoma." <i>Cancer Metab</i> <b>5</b>:5; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28680592 28680592]; doi: [https://dx.doi.org/10.1186/s40170-017-0167-y 10.1186/s40170-017-0167-y]; GPMDB: [http://gpmdb.org/data/keyword/28680592 12]. | #Miikkulainen P, Högel H, Rantanen K, Suomi T, Kouvonen P, Elo LL, Jaakkola PM, (2017) "HIF prolyl hydroxylase PHD3 regulates translational machinery and glucose metabolism in clear cell renal cell carcinoma." <i>Cancer Metab</i> <b>5</b>:5; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28680592 28680592]; doi: [https://dx.doi.org/10.1186/s40170-017-0167-y 10.1186/s40170-017-0167-y]; GPMDB: [http://gpmdb.org/data/keyword/28680592 12]. | ||
#Zwittink RD, van Zoeren-Grobben D, Martin R, van Lingen RA, Groot Jebbink LJ, Boeren S, Renes IB, van Elburg RM, Belzer C, Knol J, (2017) "Metaproteomics reveals functional differences in intestinal microbiota development of preterm infants." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28684633 28684633]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000102 10.1074/mcp.RA117.000102]; GPMDB: [http://gpmdb.org/data/keyword/28684633 65]. | #Zwittink RD, van Zoeren-Grobben D, Martin R, van Lingen RA, Groot Jebbink LJ, Boeren S, Renes IB, van Elburg RM, Belzer C, Knol J, (2017) "Metaproteomics reveals functional differences in intestinal microbiota development of preterm infants." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28684633 28684633]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000102 10.1074/mcp.RA117.000102]; GPMDB: [http://gpmdb.org/data/keyword/28684633 65]. | ||
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#Lee HJ, Jedrychowski MP, Vinayagam A, Wu N, Shyh-Chang N, Hu Y, Min-Wen C, Moore JK, Asara JM, Lyssiotis CA, Perrimon N, Gygi SP, Cantley LC, Kirschner MW, (2017) "Proteomic and Metabolomic Characterization of a Mammalian Cellular Transition from Quiescence to Proliferation." <i>Cell Rep</i> <b>20</b>(3):721–736; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28723573 28723573]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.06.074 10.1016/j.celrep.2017.06.074]; GPMDB: [http://gpmdb.org/data/keyword/28723573 2]. | #Lee HJ, Jedrychowski MP, Vinayagam A, Wu N, Shyh-Chang N, Hu Y, Min-Wen C, Moore JK, Asara JM, Lyssiotis CA, Perrimon N, Gygi SP, Cantley LC, Kirschner MW, (2017) "Proteomic and Metabolomic Characterization of a Mammalian Cellular Transition from Quiescence to Proliferation." <i>Cell Rep</i> <b>20</b>(3):721–736; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28723573 28723573]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.06.074 10.1016/j.celrep.2017.06.074]; GPMDB: [http://gpmdb.org/data/keyword/28723573 2]. | ||
#La Barbera G, Capriotti AL, Michelini E, Piovesana S, Calabretta MM, Chiozzi RZ, Roda A, Laganà A, (2017) "Proteomic analysis and bioluminescent reporter gene assays to investigate effects of simulated microgravity on Caco-2 cells." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28727291 28727291]; doi: [https://dx.doi.org/10.1002/pmic.201700081 10.1002/pmic.201700081]; GPMDB: [http://gpmdb.org/data/keyword/28727291 13]. | #La Barbera G, Capriotti AL, Michelini E, Piovesana S, Calabretta MM, Chiozzi RZ, Roda A, Laganà A, (2017) "Proteomic analysis and bioluminescent reporter gene assays to investigate effects of simulated microgravity on Caco-2 cells." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28727291 28727291]; doi: [https://dx.doi.org/10.1002/pmic.201700081 10.1002/pmic.201700081]; GPMDB: [http://gpmdb.org/data/keyword/28727291 13]. | ||
+ | #Mir SA, Renuse S, Sathe G, Khan AA, Patil AH, Nanjappa V, Bhat FA, Prasad TSK, Giri AK, Chatterjee A, Gowda H, (2017) "Altered signaling associated with chronic arsenic exposure in human skin keratinocytes." <i>Proteomics Clin Appl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28731282 28731282]; doi: [https://dx.doi.org/10.1002/prca.201700004 10.1002/prca.201700004]; GPMDB: [http://gpmdb.org/data/keyword/28731282 2]. | ||
+ | #Maffioli E, Nonnis S, Angioni R, Santagata F, Calì B, Zanotti L, Negri A, Viola A, Tedeschi G, (2017) "Proteomic analysis of the secretome of human bone marrow-derived mesenchymal stem cells primed by pro-inflammatory cytokines." <i>J Proteomics</i> <b>166</b>:115–126; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28739509 28739509]; doi: [https://dx.doi.org/10.1016/j.jprot.2017.07.012 10.1016/j.jprot.2017.07.012]; GPMDB: [http://gpmdb.org/data/keyword/28739509 20]. | ||
#Hau AC, Grebbin BM, Agoston Z, Anders-Maurer M, Müller T, Groß A, Kolb J, Langer JD, Döring C, Schulte D, (2017) "MEIS homeodomain proteins facilitate PARP1/ARTD1-mediated eviction of histone H1." <i>J Cell Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28739678 28739678]; doi: [https://dx.doi.org/10.1083/jcb.201701154 10.1083/jcb.201701154]; GPMDB: [http://gpmdb.org/data/keyword/28739678 6]. | #Hau AC, Grebbin BM, Agoston Z, Anders-Maurer M, Müller T, Groß A, Kolb J, Langer JD, Döring C, Schulte D, (2017) "MEIS homeodomain proteins facilitate PARP1/ARTD1-mediated eviction of histone H1." <i>J Cell Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28739678 28739678]; doi: [https://dx.doi.org/10.1083/jcb.201701154 10.1083/jcb.201701154]; GPMDB: [http://gpmdb.org/data/keyword/28739678 6]. | ||
+ | #Girardi T, Vereecke S, Sulima SO, Khan Y, Fancello L, Briggs JW, Schwab C, de Beeck JO, Verbeeck J, Royaert J, Geerdens E, Vicente C, Bornschein S, Harrison CJ, Meijerink JP, Cools J, Dinman JD, Kampen KR, De Keersmaecker K, (2017) "The T-cell leukemia-associated ribosomal RPL10 R98S mutation enhances JAK-STAT signaling." <i>Leukemia</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28744013 28744013]; doi: [https://dx.doi.org/10.1038/leu.2017.225 10.1038/leu.2017.225]; GPMDB: [http://gpmdb.org/data/keyword/28744013 36]. | ||
#D'Angelo G, Chaerkady R, Yu W, Hizal DB, Hess S, Zhao W, Lekstrom K, Guo X, White WI, Roskos L, Bowen MA, Yang H, (2017) "Statistical models for the analysis of isobaric tags multiplexed quantitative proteomics." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28745510 28745510]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b01050 10.1021/acs.jproteome.6b01050]; GPMDB: [http://gpmdb.org/data/keyword/28745510 5]. | #D'Angelo G, Chaerkady R, Yu W, Hizal DB, Hess S, Zhao W, Lekstrom K, Guo X, White WI, Roskos L, Bowen MA, Yang H, (2017) "Statistical models for the analysis of isobaric tags multiplexed quantitative proteomics." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28745510 28745510]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b01050 10.1021/acs.jproteome.6b01050]; GPMDB: [http://gpmdb.org/data/keyword/28745510 5]. | ||
#Komor MA, Pham T, Hiemstra AC, Piersma SR, Bolijn AS, Schelfhorst T, Delis-van Diemen PM, Tijssen M, Sebra RP, Ashby M, Meijer GA, Jimenez CR, Fijneman RJA, (2017) "Identification of differentially expressed splice variants by the proteogenomic pipeline Splicify." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28747380 28747380]; doi: [https://dx.doi.org/10.1074/mcp.TIR117.000056 10.1074/mcp.TIR117.000056]; GPMDB: [http://gpmdb.org/data/keyword/28747380 14]. | #Komor MA, Pham T, Hiemstra AC, Piersma SR, Bolijn AS, Schelfhorst T, Delis-van Diemen PM, Tijssen M, Sebra RP, Ashby M, Meijer GA, Jimenez CR, Fijneman RJA, (2017) "Identification of differentially expressed splice variants by the proteogenomic pipeline Splicify." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28747380 28747380]; doi: [https://dx.doi.org/10.1074/mcp.TIR117.000056 10.1074/mcp.TIR117.000056]; GPMDB: [http://gpmdb.org/data/keyword/28747380 14]. | ||
#Zhang X, Chen W, Ning Z, Mayne J, Mack D, Stintzi A, Tian R, Figeys D, (2017) "Deep Metaproteomics Approach for the Study of Human Microbiomes." <i>Anal Chem</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28749657 28749657]; doi: [https://dx.doi.org/10.1021/acs.analchem.7b02224 10.1021/acs.analchem.7b02224]; GPMDB: [http://gpmdb.org/data/keyword/28749657 43]. | #Zhang X, Chen W, Ning Z, Mayne J, Mack D, Stintzi A, Tian R, Figeys D, (2017) "Deep Metaproteomics Approach for the Study of Human Microbiomes." <i>Anal Chem</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28749657 28749657]; doi: [https://dx.doi.org/10.1021/acs.analchem.7b02224 10.1021/acs.analchem.7b02224]; GPMDB: [http://gpmdb.org/data/keyword/28749657 43]. | ||
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+ | #Singh KD, Zheng X, Milstein S, Keller M, Roschitzki B, Grossmann J, Hengartner MO, (2017) "Differential regulation of germ line apoptosis and germ cell differentiation by CPEB family members in C. elegans." <i>PLoS One</i> <b>12</b>(7):e0182270; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28759574 28759574]; doi: [https://dx.doi.org/10.1371/journal.pone.0182270 10.1371/journal.pone.0182270]; GPMDB: [http://gpmdb.org/data/keyword/28759574 6]. | ||
+ | #Gómez-Baena G, Bennett RJ, Martínez-Rodríguez C, Wnęk M, Laing G, Hickey G, McLean L, Beynon RJ, Carrol ED, (2017) "Quantitative Proteomics of Cerebrospinal Fluid in Paediatric Pneumococcal Meningitis." <i>Sci Rep</i> <b>7</b>(1):7042; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28765563 28765563]; doi: [https://dx.doi.org/10.1038/s41598-017-07127-6 10.1038/s41598-017-07127-6]; GPMDB: [http://gpmdb.org/data/keyword/28765563 28]. | ||
+ | #Fabiani FD, Renault TT, Peters B, Dietsche T, Gálvez EJC, Guse A, Freier K, Charpentier E, Strowig T, Franz-Wachtel M, Macek B, Wagner S, Hensel M, Erhardt M, (2017) "A flagellum-specific chaperone facilitates assembly of the core type III export apparatus of the bacterial flagellum." <i>PLoS Biol</i> <b>15</b>(8):e2002267; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28771474 28771474]; doi: [https://dx.doi.org/10.1371/journal.pbio.2002267 10.1371/journal.pbio.2002267]; GPMDB: [http://gpmdb.org/data/keyword/28771474 26]. | ||
+ | #Nguyen AT, Prado MA, Schmidt PJ, Sendamarai AK, Wilson-Grady JT, Min M, Campagna DR, Tian G, Shi Y, Dederer V, Kawan M, Kuehnle N, Paulo JA, Yao Y, Weiss MJ, Justice MJ, Gygi SP, Fleming MD, Finley D, (2017) "UBE2O remodels the proteome during terminal erythroid differentiation." <i>Science</i> <b>357</b>(6350):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28774900 28774900]; doi: [https://dx.doi.org/10.1126/science.aan0218 10.1126/science.aan0218]; GPMDB: [http://gpmdb.org/data/keyword/28774900 13]. | ||
+ | #Khan MH, Salomaa SI, Jacquemet G, Butt U, Miihkinen M, Deguchi T, Kremneva E, Lappalainen P, Humphries MJ, Pouwels J, (2017) "The Sharpin interactome reveals a role for Sharpin in lamellipodium formation via the Arp2/3 complex." <i>J Cell Sci</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28775156 28775156]; doi: [https://dx.doi.org/10.1242/jcs.200329 10.1242/jcs.200329]; GPMDB: [http://gpmdb.org/data/keyword/28775156 51]. | ||
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+ | #García-Berrocoso T, Llombart V, Colàs-Campàs L, Hainard A, Licker V, Penalba A, Ramiro L, Simats A, Bustamante A, Martínez-Saez E, Canals F, Sanchez JC, Montaner J, (2017) "Single Cell Immuno-laser Microdissection Coupled to Label-free Proteomics to Reveal the Proteotypes of Human Brain Cells After Ischemia." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29133510 29133510]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000419 10.1074/mcp.RA117.000419]; GPMDB: [http://gpmdb.org/data/keyword/29133510 102]. | ||
+ | #Negretti NM, Gourley CR, Clair G, Adkins JN, Konkel ME, (2017) "The food-borne pathogen Campylobacter jejuni responds to the bile salt deoxycholate with countermeasures to reactive oxygen species." <i>Sci Rep</i> <b>7</b>(1):15455; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29133896 29133896]; doi: [https://dx.doi.org/10.1038/s41598-017-15379-5 10.1038/s41598-017-15379-5]; GPMDB: [http://gpmdb.org/data/keyword/29133896 8]. | ||
+ | #Doll S, Dreßen M, Geyer PE, Itzhak DN, Braun C, Doppler SA, Meier F, Deutsch MA, Lahm H, Lange R, Krane M, Mann M, (2017) "Region and cell-type resolved quantitative proteomic map of the human heart." <i>Nat Commun</i> <b>8</b>(1):1469; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29133944 29133944]; doi: [https://dx.doi.org/10.1038/s41467-017-01747-2 10.1038/s41467-017-01747-2]; GPMDB: [http://gpmdb.org/data/keyword/29133944 159]. | ||
+ | #Anders F, Liu A, Mann C, Teister J, Lauzi J, Thanos S, Grus FH, Pfeiffer N, Prokosch V, (2017) "The Small Heat Shock Protein α-Crystallin B Shows Neuroprotective Properties in a Glaucoma Animal Model." <i>Int J Mol Sci</i> <b>18</b>(11):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29135941 29135941]; doi: [https://dx.doi.org/10.3390/ijms18112418 10.3390/ijms18112418]; GPMDB: [http://gpmdb.org/data/keyword/29135941 8]. | ||
+ | #Geis-Asteggiante L, Belew AT, Clements VK, Edwards NJ, Ostrand-Rosenberg S, El-Sayed NM, Fenselau C, (2017) "Differential content of proteins, mRNAs, and miRNAs suggests that MDSC and their exosomes may mediate distinct immune suppressive functions." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29139296 29139296]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00646 10.1021/acs.jproteome.7b00646]; GPMDB: [http://gpmdb.org/data/keyword/29139296 60]. | ||
+ | #Worzfeld T, Finkernagel F, Reinartz S, Konzer A, Adhikary T, Nist A, Stiewe T, Wagner U, Looso M, Graumann J, Müller R, (2017) "Proteotranscriptomics Reveal Signaling Networks in the Ovarian Cancer Microenvironment." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29141914 29141914]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000400 10.1074/mcp.RA117.000400]; GPMDB: [http://gpmdb.org/data/keyword/29141914 121]. | ||
+ | #Yilmaz O, Patinote A, Nguyen TV, Com E, Lavigne R, Pineau C, Sullivan CV, Bobe J, (2017) "Scrambled eggs: Proteomic portraits and novel biomarkers of egg quality in zebrafish (Danio rerio)." <i>PLoS One</i> <b>12</b>(11):e0188084; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29145436 29145436]; doi: [https://dx.doi.org/10.1371/journal.pone.0188084 10.1371/journal.pone.0188084]; GPMDB: [http://gpmdb.org/data/keyword/29145436 57]. | ||
+ | #Cherry JD, Zeineddin A, Dammer EB, Webster JA, Duong D, Seyfried NT, Levey AI, Alvarez VE, Huber BR, Stein TD, Kiernan PT, McKee AC, Lah JJ, Hales CM, (2017) "Characterization of Detergent Insoluble Proteome in Chronic Traumatic Encephalopathy." <i>J Neuropathol Exp Neurol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29145658 29145658]; doi: [https://dx.doi.org/10.1093/jnen/nlx100 10.1093/jnen/nlx100]; GPMDB: [http://gpmdb.org/data/keyword/29145658 4]. | ||
+ | #Korkmaz AG, Popov T, Peisl L, Codrea MC, Nahnsen S, Steimle A, Velic A, Macek B, von Bergen M, Bernhardt J, Frick JS, (2017) "Proteome and phosphoproteome analysis of commensally induced dendritic cell maturation states." <i>J Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29155090 29155090]; doi: [https://dx.doi.org/10.1016/j.jprot.2017.11.008 10.1016/j.jprot.2017.11.008]; GPMDB: [http://gpmdb.org/data/keyword/29155090 21]. | ||
+ | #Föll MC, Fahrner M, Gretzmeier C, Thoma K, Biniossek ML, Kiritsi D, Meiss F, Schilling O, Nyström A, Kern JS, (2017) "Identification of tissue damage, extracellular matrix remodeling and bacterial challenge as common mechanisms associated with high-risk cutaneous squamous cell carcinomas." <i>Matrix Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29158163 29158163]; doi: [https://dx.doi.org/10.1016/j.matbio.2017.11.004 10.1016/j.matbio.2017.11.004]; GPMDB: [http://gpmdb.org/data/keyword/29158163 24]. | ||
+ | #Hoffman MA, Fang B, Haura EB, Rix U, Koomen JM, (2017) "Comparison of Quantitative Mass Spectrometry Platforms for Monitoring Kinase ATP Probe Uptake in Lung Cancer." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29164889 29164889]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00329 10.1021/acs.jproteome.7b00329]; GPMDB: [http://gpmdb.org/data/keyword/29164889 18]. | ||
+ | #Hosp F, Gutiérrez-Ángel S, Schaefer MH, Cox J, Meissner F, Hipp MS, Hartl FU, Klein R, Dudanova I, Mann M, (2017) "Spatiotemporal Proteomic Profiling of Huntington's Disease Inclusions Reveals Widespread Loss of Protein Function." <i>Cell Rep</i> <b>21</b>(8):2291–2303; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29166617 29166617]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.10.097 10.1016/j.celrep.2017.10.097]; GPMDB: [http://gpmdb.org/data/keyword/29166617 196]. | ||
+ | #Babu M, Bundalovic-Torma C, Calmettes C, Phanse S, Zhang Q, Jiang Y, Minic Z, Kim S, Mehla J, Gagarinova A, Rodionova I, Kumar A, Guo H, Kagan O, Pogoutse O, Aoki H, Deineko V, Caufield JH, Holtzapple E, Zhang Z, Vastermark A, Pandya Y, Lai CC, El Bakkouri M, Hooda Y, Shah M, Burnside D, Hooshyar M, Vlasblom J, Rajagopala SV, Golshani A, Wuchty S, F Greenblatt J, Saier M, Uetz P, F Moraes T, Parkinson J, Emili A, (2017) "Global landscape of cell envelope protein complexes in Escherichia coli." <i>Nat Biotechnol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29176613 29176613]; doi: [https://dx.doi.org/10.1038/nbt.4024 10.1038/nbt.4024]; GPMDB: [http://gpmdb.org/data/keyword/29176613 2972]. | ||
+ | #Kelstrup CD, Bekker-Jensen DB, Arrey TN, Hogrebe A, Harder A, Olsen JV, (2018) "Performance Evaluation of the Q Exactive HF-X for Shotgun Proteomics." <i>J Proteome Res</i> <b>17</b>(1):727–738; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29183128 29183128]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00602 10.1021/acs.jproteome.7b00602]; GPMDB: [http://gpmdb.org/data/keyword/29183128 107]. | ||
+ | #Winter DL, Hart-Smith G, Wilkins MR, (2018) "Characterization of Protein Methyltransferases Rkm1, Rkm4, Efm4, Efm7, Set5 and Hmt1 Reveals Extensive Post-Translational Modification." <i>J Mol Biol</i> <b>430</b>(1):102–118; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29183786 29183786]; doi: [https://dx.doi.org/10.1016/j.jmb.2017.11.009 10.1016/j.jmb.2017.11.009]; GPMDB: [http://gpmdb.org/data/keyword/29183786 18]. | ||
+ | #Lacombe M, Marie-Desvergne C, Combes F, Kraut A, Bruley C, Vandenbrouck Y, Chamel Mossuz V, Couté Y, Brun V, (2017) "Proteomic characterization of human exhaled breath condensate." <i>J Breath Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29189203 29189203]; doi: [https://dx.doi.org/10.1088/1752-7163/aa9e71 10.1088/1752-7163/aa9e71]; GPMDB: [http://gpmdb.org/data/keyword/29189203 4]. | ||
+ | #Klaeger S, Heinzlmeir S, Wilhelm M, Polzer H, Vick B, Koenig PA, Reinecke M, Ruprecht B, Petzoldt S, Meng C, Zecha J, Reiter K, Qiao H, Helm D, Koch H, Schoof M, Canevari G, Casale E, Depaolini SR, Feuchtinger A, Wu Z, Schmidt T, Rueckert L, Becker W, Huenges J, Garz AK, Gohlke BO, Zolg DP, Kayser G, Vooder T, Preissner R, Hahne H, Tõnisson N, Kramer K, Götze K, Bassermann F, Schlegl J, Ehrlich HC, Aiche S, Walch A, Greif PA, Schneider S, Felder ER, Ruland J, Médard G, Jeremias I, Spiekermann K, Kuster B, (2017) "The target landscape of clinical kinase drugs." <i>Science</i> <b>358</b>(6367):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29191878 29191878]; doi: [https://dx.doi.org/10.1126/science.aan4368 10.1126/science.aan4368]; GPMDB: [http://gpmdb.org/data/keyword/29191878 3032]. | ||
+ | #Smith MC, Timmins-Schiffman E, Coton M, Coton E, Hymery N, Nunn BL, Madec S, (2017) "Differential impacts of individual and combined exposures of deoxynivalenol and zearalenone on the HepaRG human hepatic cell proteome." <i>J Proteomics</i> <b>173</b>:89–98; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29208510 29208510]; doi: [https://dx.doi.org/10.1016/j.jprot.2017.11.025 10.1016/j.jprot.2017.11.025]; GPMDB: [http://gpmdb.org/data/keyword/29208510 72]. | ||
+ | #Herzog R, Boehm M, Unterwurzacher M, Wagner A, Parapatics K, Majek P, Mueller AC, Lichtenauer A, Bennett KL, Alper SL, Vychytil A, Aufricht C, Kratochwill K, (2017) "Effects of alanyl-glutamine treatment on the peritoneal dialysis effluent proteome reveal pathomechanism-associated molecular signatures." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29208752 29208752]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000186 10.1074/mcp.RA117.000186]; GPMDB: [http://gpmdb.org/data/keyword/29208752 10]. | ||
+ | #Wierer M, Prestel M, Schiller H, Yan G, Schaab C, Azghandi S, Werner J, Kessler T, Malik R, Murgia M, Aherrahrou Z, Schunkert H, Dichgans M, Mann M, (2017) "Compartment-resolved Proteomic Analysis of Mouse Aorta during Atherosclerotic Plaque Formation Reveals Osteoclast-specific Protein Expression." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29208753 29208753]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000315 10.1074/mcp.RA117.000315]; GPMDB: [http://gpmdb.org/data/keyword/29208753 156]. | ||
+ | #Stachowicz A, Siudut J, Suski M, Olszanecki R, Korbut R, Undas A, Wiśniewski JR, (2017) "Optimization of quantitative proteomic analysis of clots generated from plasma of patients with venous thromboembolism." <i>Clin Proteomics</i> <b>14</b>:38; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29209155 29209155]; doi: [https://dx.doi.org/10.1186/s12014-017-9173-x 10.1186/s12014-017-9173-x]; GPMDB: [http://gpmdb.org/data/keyword/29209155 36]. | ||
+ | #Muth T, Kohrs F, Heyer R, Benndorf D, Rapp E, Reichl U, Martens L, Renard BY, (2017) "MPA Portable: A Stand-Alone Software Package for Analyzing Metaproteome Samples on the Go." <i>Anal Chem</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29215871 29215871]; doi: [https://dx.doi.org/10.1021/acs.analchem.7b03544 10.1021/acs.analchem.7b03544]; GPMDB: [http://gpmdb.org/data/keyword/29215871 3]. | ||
+ | #Sobocińska J, Roszczenko-Jasińska P, Zaręba-Kozioł M, Hromada-Judycka A, Matveichuk OV, Traczyk G, Łukasiuk K, Kwiatkowska K, (2017) "LPS upregulates palmitoylated enzymes of the phosphatidylinositol cycle. An insight from proteomic studies." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29217618 29217618]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000050 10.1074/mcp.RA117.000050]; GPMDB: [http://gpmdb.org/data/keyword/29217618 12]. | ||
+ | #Holthoff ER, Byrum SD, Mackintosh SG, Kelly T, Tackett AJ, Quick CM, Post SR, (2017) "Vulvar squamous cell carcinoma aggressiveness is associated with differential expression of collagen and STAT1." <i>Clin Proteomics</i> <b>14</b>:40; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29225558 29225558]; doi: [https://dx.doi.org/10.1186/s12014-017-9175-8 10.1186/s12014-017-9175-8]; GPMDB: [http://gpmdb.org/data/keyword/29225558 414]. | ||
+ | #Stewart NA, Gerlach RF, Gowland RL, Gron KJ, Montgomery J, (2017) "Sex determination of human remains from peptides in tooth enamel." <i>Proc Natl Acad Sci U S A</i> <b>114</b>(52):13649–13654; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29229823 29229823]; doi: [https://dx.doi.org/10.1073/pnas.1714926115 10.1073/pnas.1714926115]; GPMDB: [http://gpmdb.org/data/keyword/29229823 13]. | ||
+ | #Bizzotto S, Uzquiano A, Dingli F, Ershov D, Houllier A, Arras G, Richards M, Loew D, Minc N, Croquelois A, Houdusse A, Francis F, (2017) "Eml1 loss impairs apical progenitor spindle length and soma shape in the developing cerebral cortex." <i>Sci Rep</i> <b>7</b>(1):17308; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29229923 29229923]; doi: [https://dx.doi.org/10.1038/s41598-017-15253-4 10.1038/s41598-017-15253-4]; GPMDB: [http://gpmdb.org/data/keyword/29229923 28]. | ||
+ | #Alli-Shaik A, Wee S, Lim LHK, Gunaratne J, (2017) "Phosphoproteomics reveals network rewiring to a pro-adhesion state in annexin-1-deficient mammary epithelial cells." <i>Breast Cancer Res</i> <b>19</b>(1):132; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29233185 29233185]; doi: [https://dx.doi.org/10.1186/s13058-017-0924-4 10.1186/s13058-017-0924-4]; GPMDB: [http://gpmdb.org/data/keyword/29233185 263]. | ||
+ | #Chong C, Marino F, Pak HS, Racle J, Daniel RT, Müller M, Gfeller D, Coukos G, Bassani-Sternberg M, (2017) "High-throughput and sensitive immunopeptidomics platform reveals profound IFNγ-mediated remodeling of the HLA ligandome." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29242379 29242379]; doi: [https://dx.doi.org/10.1074/mcp.TIR117.000383 10.1074/mcp.TIR117.000383]; GPMDB: [http://gpmdb.org/data/keyword/29242379 121]. | ||
+ | #Müller AK, Föll M, Heckelmann B, Kiefer S, Werner M, Schilling O, Biniossek ML, Jilg CA, Drendel V, (2017) "Proteomic Characterization of Prostate Cancer to Distinguish Nonmetastasizing and Metastasizing Primary Tumors and Lymph Node Metastases." <i>Neoplasia</i> <b>20</b>(2):140–151; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29248718 29248718]; doi: [https://dx.doi.org/10.1016/j.neo.2017.10.009 10.1016/j.neo.2017.10.009]; GPMDB: [http://gpmdb.org/data/keyword/29248718 15]. | ||
+ | #Krogager TP, Ernst RJ, Elliott TS, Calo L, Beránek V, Ciabatti E, Spillantini MG, Tripodi M, Hastings MH, Chin JW, (2017) "Labeling and identifying cell-specific proteomes in the mouse brain." <i>Nat Biotechnol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29251727 29251727]; doi: [https://dx.doi.org/10.1038/nbt.4056 10.1038/nbt.4056]; GPMDB: [http://gpmdb.org/data/keyword/29251727 33]. | ||
+ | #Bielecka ZF, Malinowska A, Brodaczewska KK, Klemba A, Kieda C, Krasowski P, Grzesiuk E, Piwowarski J, Czarnecka AM, Szczylik C, (2017) "Hypoxic 3D in vitro culture models reveal distinct resistance processes to TKIs in renal cancer cells." <i>Cell Biosci</i> <b>7</b>:71; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29270287 29270287]; doi: [https://dx.doi.org/10.1186/s13578-017-0197-8 10.1186/s13578-017-0197-8]; GPMDB: [http://gpmdb.org/data/keyword/29270287 12]. | ||
+ | #Gao Y, Liu X, Tang B, Li C, Kou Z, Li L, Liu W, Wu Y, Kou X, Li J, Zhao Y, Yin J, Wang H, Chen S, Liao L, Gao S, (2017) "Protein Expression Landscape of Mouse Embryos during Pre-implantation Development." <i>Cell Rep</i> <b>21</b>(13):3957–3969; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29281840 29281840]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.11.111 10.1016/j.celrep.2017.11.111]; GPMDB: [http://gpmdb.org/data/keyword/29281840 2]. | ||
+ | #Thriene K, Grüning BA, Bornert O, Erxleben A, Leppert J, Athanasiou I, Weber E, Kiritsi D, Nyström A, Reinheckel T, Backofen R, Has C, Bruckner-Tuderman L, Dengjel J, (2018) "Combinatorial omics analysis reveals perturbed lysosomal homeostasis in collagen VII-deficient keratinocytes." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29326176 29326176]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000437 10.1074/mcp.RA117.000437]; GPMDB: [http://gpmdb.org/data/keyword/29326176 5]. |
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 |
The following public data repositories are checked daily for new suitable raw data for reanalysis:
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.
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.
Simply because data is made available does not mean that it will be included in GPMDB. The data must be approved our quality control AI for its initial acceptance and it may be rejected subsequently because of either quality or originality concerns.
CAUTION: Many papers contain serious errors in their Methods sections. When using data from the literature, it is important to be skeptical of any experimental parameter (cell line, tissue type, modification reagents, quantitation methoods, etc.) that may impact on your use of the data. We have tried to correct any obvious errors, but there is no way to guarantee that we found them all. When attempting to analyze or reproduce results, keep in mind the likelyhood that even key parts of the experiment methods may have been recorded incorrectly in the associated manuscript, as methods are rarely reviewed properly in the current journal publication process.
The following is a list of 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 Jan. 22, 2018.