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==Data from publications== | ==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 | + | 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 February 7, 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) "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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#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) "Analysis of disease-associated protein expression using quantitative proteomics—fibulin-5 is expressed in association with hepatic fibrosis." <i>J Proteome Res</i> <b>14</b>(5):2278–86; 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) "Analysis of disease-associated protein expression using quantitative proteomics—fibulin-5 is expressed in association with hepatic fibrosis." <i>J Proteome Res</i> <b>14</b>(5):2278–86; 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) "Multifunctional reagents for quantitative proteome-wide analysis of protein modification in human cells and dynamic profiling of protein lipidation during vertebrate development." <i>Angew Chem Int Ed Engl</i> <b>54</b>(20):5948–51; 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) "Multifunctional reagents for quantitative proteome-wide analysis of protein modification in human cells and dynamic profiling of protein lipidation during vertebrate development." <i>Angew Chem Int Ed Engl</i> <b>54</b>(20):5948–51; 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) "Large-scale determination of absolute phosphorylation stoichiometries in human cells by motif-targeting quantitative proteomics." <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]. | ||
#Khan MN, Sakata K, Komatsu S, (2015) "Proteomic analysis of soybean hypocotyl during recovery after flooding stress." <i>J Proteomics</i> <b>121</b>:15–27; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25818724 25818724]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.03.020 10.1016/j.jprot.2015.03.020]; GPMDB: [http://gpmdb.org/data/keyword/25818724 21]. | #Khan MN, Sakata K, Komatsu S, (2015) "Proteomic analysis of soybean hypocotyl during recovery after flooding stress." <i>J Proteomics</i> <b>121</b>:15–27; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25818724 25818724]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.03.020 10.1016/j.jprot.2015.03.020]; GPMDB: [http://gpmdb.org/data/keyword/25818724 21]. | ||
#Moretti F, Rolando C, Winker M, Ivanek R, Rodriguez J, Von Kriegsheim A, Taylor V, Bustin M, Pertz O, (2015) "Growth Cone Localization of the mRNA Encoding the Chromatin Regulator HMGN5 Modulates Neurite Outgrowth." <i>Mol Cell Biol</i> <b>35</b>(11):2035–50; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25825524 25825524]; doi: [https://dx.doi.org/10.1128/MCB.00133-15 10.1128/MCB.00133-15]; GPMDB: [http://gpmdb.org/data/keyword/25825524 72]. | #Moretti F, Rolando C, Winker M, Ivanek R, Rodriguez J, Von Kriegsheim A, Taylor V, Bustin M, Pertz O, (2015) "Growth Cone Localization of the mRNA Encoding the Chromatin Regulator HMGN5 Modulates Neurite Outgrowth." <i>Mol Cell Biol</i> <b>35</b>(11):2035–50; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25825524 25825524]; doi: [https://dx.doi.org/10.1128/MCB.00133-15 10.1128/MCB.00133-15]; GPMDB: [http://gpmdb.org/data/keyword/25825524 72]. | ||
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#Basak T, Vega-Montoto L, Zimmerman LJ, Tabb DL, Hudson BG, Vanacore RM, (2016) "Comprehensive Characterization of Glycosylation and Hydroxylation of Basement Membrane Collagen IV by High-Resolution Mass Spectrometry." <i>J Proteome Res</i> <b>15</b>(1):245–58; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26593852 26593852]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00767 10.1021/acs.jproteome.5b00767]; GPMDB: [http://gpmdb.org/data/keyword/26593852 26]. | #Basak T, Vega-Montoto L, Zimmerman LJ, Tabb DL, Hudson BG, Vanacore RM, (2016) "Comprehensive Characterization of Glycosylation and Hydroxylation of Basement Membrane Collagen IV by High-Resolution Mass Spectrometry." <i>J Proteome Res</i> <b>15</b>(1):245–58; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26593852 26593852]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00767 10.1021/acs.jproteome.5b00767]; GPMDB: [http://gpmdb.org/data/keyword/26593852 26]. | ||
#Leiser OP, Merkley ED, Clowers BH, Deatherage Kaiser BL, Lin A, Hutchison JR, Melville AM, Wagner DM, Keim PS, Foster JT, Kreuzer HW, (2015) "Investigation of Yersinia pestis Laboratory Adaptation through a Combined Genomics and Proteomics Approach." <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) "Investigation of Yersinia pestis Laboratory Adaptation through a Combined Genomics and Proteomics Approach." <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, ( | + | #Broncel M, Serwa RA, Bunney TD, Katan M, Tate EW, (2016) "Global Profiling of Huntingtin-associated protein E (HYPE)-Mediated AMPylation through a Chemical Proteomic Approach." <i>Mol Cell Proteomics</i> <b>15</b>(2):715–25; 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, MartÃnez-Bartolomé S, Lavallée-Adam M, Balch WE, Yates JR 3rd, (2015) "∆F508 CFTR interactome remodelling promotes rescue of cystic fibrosis." <i>Nature</i> <b>528</b>(7583):510–6; 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, MartÃnez-Bartolomé S, Lavallée-Adam M, Balch WE, Yates JR 3rd, (2015) "∆F508 CFTR interactome remodelling promotes rescue of cystic fibrosis." <i>Nature</i> <b>528</b>(7583):510–6; 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, ( | + | #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) "Immobilized Metal Affinity Chromatography Coupled to Multiple Reaction Monitoring Enables Reproducible Quantification of Phospho-signaling." <i>Mol Cell Proteomics</i> <b>15</b>(2):726–39; 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) "A Peptidomimetic Antibiotic Targets Outer Membrane Proteins and Disrupts Selectively the Outer Membrane in Escherichia coli." <i>J Biol Chem</i> <b>291</b>(4):1921–32; 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) "A Peptidomimetic Antibiotic Targets Outer Membrane Proteins and Disrupts Selectively the Outer Membrane in Escherichia coli." <i>J Biol Chem</i> <b>291</b>(4):1921–32; 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]. | ||
#Krogager TP, Nielsen LV, Kahveci D, Dyrlund TF, Scavenius C, Sanggaard KW, Enghild JJ, (2015) "Hepatocytes respond differently to major dietary trans fatty acid isomers, elaidic acid and trans-vaccenic acid." <i>Proteome Sci</i> <b>13</b>:31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26628894 26628894]; doi: [https://dx.doi.org/10.1186/s12953-015-0084-3 10.1186/s12953-015-0084-3]; GPMDB: [http://gpmdb.org/data/keyword/26628894 95]. | #Krogager TP, Nielsen LV, Kahveci D, Dyrlund TF, Scavenius C, Sanggaard KW, Enghild JJ, (2015) "Hepatocytes respond differently to major dietary trans fatty acid isomers, elaidic acid and trans-vaccenic acid." <i>Proteome Sci</i> <b>13</b>:31; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26628894 26628894]; doi: [https://dx.doi.org/10.1186/s12953-015-0084-3 10.1186/s12953-015-0084-3]; GPMDB: [http://gpmdb.org/data/keyword/26628894 95]. | ||
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#Aguado BA, Wu JJ, Azarin SM, Nanavati D, Rao SS, Bushnell GG, Medicherla CB, Shea LD, (2015) "Secretome identification of immune cell factors mediating metastatic cell homing." <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) "Secretome identification of immune cell factors mediating metastatic cell homing." <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, (2015) "Immunohistochemical Markers Distinguishing Cholangiocellular Carcinoma from Pancreatic Ductal Adenocarcinoma Discovered by Proteomic Analysis of Microdissected Cells." <i>Mol Cell Proteomics</i>; 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, (2015) "Immunohistochemical Markers Distinguishing Cholangiocellular Carcinoma from Pancreatic Ductal Adenocarcinoma Discovered by Proteomic Analysis of Microdissected Cells." <i>Mol Cell Proteomics</i>; 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]. | ||
- | #Kasvandik S, Samuel K, Peters M, Eimre M, Peet N, Roost AM, Padrik L, Paju K, Peil L, Salumets A, ( | + | #Xu J, Gao J, Yu C, He H, Yang Y, Figeys D, Zhou H, (2016) "Development of Online pH Gradient-Eluted Strong Cation Exchange Nanoelectrospray-Tandem Mass Spectrometry for Proteomic Analysis Facilitating Basic and Histidine-Containing Peptides Identification." <i>Anal Chem</i> <b>88</b>(1):583–91; 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) "Deep Quantitative Proteomics Reveals Extensive Metabolic Reprogramming and Cancer-Like Changes of Ectopic Endometriotic Stromal Cells." <i>J Proteome Res</i> <b>15</b>(2):572–584; 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) "The centrosome is an actin-organizing centre." <i>Nat Cell Biol</i> <b>18</b>(1):65–75; 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) "The centrosome is an actin-organizing centre." <i>Nat Cell Biol</i> <b>18</b>(1):65–75; 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, (2015) "The proteomic profile of deleted in breast cancer 1 (DBC1) interactions points to a multi-faceted regulation of gene expression." <i>Mol Cell Proteomics</i>; 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, (2015) "The proteomic profile of deleted in breast cancer 1 (DBC1) interactions points to a multi-faceted regulation of gene expression." <i>Mol Cell Proteomics</i>; 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]. | ||
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#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, (2015) "The spliceosome-associated protein Nrl1 suppresses homologous recombination-dependent R-loop formation in fission yeast." <i>Nucleic Acids Res</i>; 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, (2015) "The spliceosome-associated protein Nrl1 suppresses homologous recombination-dependent R-loop formation in fission yeast." <i>Nucleic Acids Res</i>; 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) "Protein relative abundance patterns associated with sucrose-induced dysbiosis are conserved across taxonomically diverse oral microcosm biofilm models of dental caries." <i>Microbiome</i> <b>3</b>(1):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) "Protein relative abundance patterns associated with sucrose-induced dysbiosis are conserved across taxonomically diverse oral microcosm biofilm models of dental caries." <i>Microbiome</i> <b>3</b>(1):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, ( | + | #Debaisieux S, Encheva V, Chakravarty P, Snijders AP, Schiavo G, (2016) "Analysis of Signaling Endosome Composition and Dynamics Using SILAC in Embryonic Stem Cell-Derived Neurons." <i>Mol Cell Proteomics</i> <b>15</b>(2):542–57; 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) "Proteome profiles of HDL particles of patients with chronic heart failure are associated with immune response and also include bacteria proteins." <i>Clin Chim Acta</i> <b>453</b>:114–22; 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) "Proteome profiles of HDL particles of patients with chronic heart failure are associated with immune response and also include bacteria proteins." <i>Clin Chim Acta</i> <b>453</b>:114–22; 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) "Proteomic Analysis of a Fraction with Intact Eyespots of Chlamydomonas reinhardtii and Assignment of Protein Methylation." <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) "Proteomic Analysis of a Fraction with Intact Eyespots of Chlamydomonas reinhardtii and Assignment of Protein Methylation." <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]. | ||
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#Bigenzahn JW, Fauster A, Rebsamen M, Kandasamy RK, Scorzoni S, Vladimer GI, Mueller AC, Gstaiger M, Zuber J, Bennett KL, Superti-Furga G, (2015) "An inducible retroviral expression system for tandem affinity purification mass-spectrometry-based proteomics identifies MLKL as an HSP90 client." <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) "An inducible retroviral expression system for tandem affinity purification mass-spectrometry-based proteomics identifies MLKL as an HSP90 client." <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 JS, (2015) "Characterisation of two distinct Nucleosome Remodelling and Deacetylase Complex (NuRD) assemblies in embryonic stem cells." <i>Mol Cell Proteomics</i>; 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 JS, (2015) "Characterisation of two distinct Nucleosome Remodelling and Deacetylase Complex (NuRD) assemblies in embryonic stem cells." <i>Mol Cell Proteomics</i>; 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) "Toward an Upgraded Honey Bee (Apis mellifera L.) Genome Annotation Using Proteogenomics." <i>J Proteome Res</i>; 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) "Toward an Upgraded Honey Bee (Apis mellifera L.) Genome Annotation Using Proteogenomics." <i>J Proteome Res</i> <b>15</b>(2):411–421; 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) "Protein turnover during in vitro tissue engineering." <i>Biomaterials</i> <b>81</b>:104–13; 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) "Protein turnover during in vitro tissue engineering." <i>Biomaterials</i> <b>81</b>:104–13; 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) "Proteomic maps of breast cancer subtypes." <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 | + | #Tyanova S, Albrechtsen R, Kronqvist P, Cox J, Mann M, Geiger T, (2016) "Proteomic maps of breast cancer subtypes." <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 345]. |
#Laumont CM, Daouda T, Laverdure JP, Bonneil É, Caron-Lizotte O, Hardy MP, Granados DP, Durette C, Lemieux S, Thibault P, Perreault C, (2016) "Global proteogenomic analysis of human MHC class I-associated peptides derived from non-canonical reading frames." <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) "Global proteogenomic analysis of human MHC class I-associated peptides derived from non-canonical reading frames." <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) "DCAF1 controls T-cell function via p53-dependent and -independent mechanisms." <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) "DCAF1 controls T-cell function via p53-dependent and -independent mechanisms." <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]. | ||
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#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) "Mapping the O-mannose glycoproteome in Saccharomyces cerevisiae." <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) "Mapping the O-mannose glycoproteome in Saccharomyces cerevisiae." <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]. | ||
#Kümper S, Mardakheh FK, McCarthy A, Yeo M, Stamp GW, Paul A, Worboys J, Sadok A, Jørgensen C, Guichard S, Marshall CJ, (2016) "Rho-associated kinase (ROCK) function is essential for cell cycle progression, senescence and tumorigenesis." <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) "Rho-associated kinase (ROCK) function is essential for cell cycle progression, senescence and tumorigenesis." <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]. | ||
- | #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) "Attenuation of pattern recognition receptor signaling is mediated by a MAP kinase kinase kinase." <i>EMBO Rep</i>; 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 | + | #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) "Identification of a Novel Function of Adipocyte Plasma Membrane-Associated Protein (APMAP) in Gestational Diabetes Mellitus by Proteomic Analysis of Omental Adipose Tissue." <i>J Proteome Res</i> <b>15</b>(2):628–637; 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) "Attenuation of pattern recognition receptor signaling is mediated by a MAP kinase kinase kinase." <i>EMBO Rep</i>; 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) "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." <i>J Proteomics</i>; 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) "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." <i>J Proteomics</i>; 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) "Life span extension by targeting a link between metabolism and histone acetylation in Drosophila." <i>EMBO Rep</i>; 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) "Life span extension by targeting a link between metabolism and histone acetylation in Drosophila." <i>EMBO Rep</i>; 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]. | ||
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#Vincent D, Ezernieks V, Elkins A, Nguyen N, Moate PJ, Cocks BG, Rochfort S, (2015) "Milk Bottom-Up Proteomics: Method Optimization." <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) "Milk Bottom-Up Proteomics: Method Optimization." <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]. | ||
#Schüller R, Forné I, Straub T, Schreieck A, Texier Y, Shah N, Decker TM, Cramer P, Imhof A, Eick D, (2016) "Heptad-Specific Phosphorylation of RNA Polymerase II CTD." <i>Mol Cell</i> <b>61</b>(2):305–14; 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) "Heptad-Specific Phosphorylation of RNA Polymerase II CTD." <i>Mol Cell</i> <b>61</b>(2):305–14; 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]. | ||
- | #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) "Mps1 Mediated Phosphorylation of Hsp90 Confers Renal Cell Carcinoma Sensitivity and Selectivity to Hsp90 Inhibitors." <i>Cell Rep</i>; 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]. | + | #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) "Exosomes secreted by apoptosis-resistant AML blasts harbor regulatory network proteins potentially involved in antagonism of apoptosis." <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]. |
+ | #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) "Mps1 Mediated Phosphorylation of Hsp90 Confers Renal Cell Carcinoma Sensitivity and Selectivity to Hsp90 Inhibitors." <i>Cell Rep</i> <b>14</b>(4):872–84; 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]. | ||
#Voelker-Albert MC, Pusch MC, Fedisch A, Schilcher P, Schmidt A, Imhof A, (2016) "A quantitative proteomic analysis of in vitro assembled chromatin." <i>Mol Cell Proteomics</i>; 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]. | #Voelker-Albert MC, Pusch MC, Fedisch A, Schilcher P, Schmidt A, Imhof A, (2016) "A quantitative proteomic analysis of in vitro assembled chromatin." <i>Mol Cell Proteomics</i>; 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) "Towards understanding male infertility after spinal cord injury using quantitative proteomics." <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 366]. | ||
+ | #Bigaud E, Corrales FJ, (2016) "Methylthioadenosine regulates liver cells proteome and methylproteome. Implications in liver biology and disease." <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]. | ||
+ | #Lichtman JS, Ferreyra JA, Ng KM, Smits SA, Sonnenburg JL, Elias JE, (2016) "Host-Microbiota Interactions in the Pathogenesis of Antibiotic-Associated Diseases." <i>Cell Rep</i>; 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 126]. | ||
+ | #Horton ER, Humphries JD, Stutchbury B, Jacquemet G, Ballestrem C, Barry ST, Humphries MJ, (2016) "Modulation of FAK and Src adhesion signaling occurs independently of adhesion complex composition." <i>J Cell Biol</i> <b>212</b>(3):349–64; 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) "Defining the proteome of human iris, ciliary body, retinal pigment epithelium, and choroid." <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]. |
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 pass our internal automated quality control tests for its initial acceptance and it may be rejected subsequently because of either quality or originality concerns.
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 February 7, 2016.