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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 August | + | 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 August 14, 2016. |
#Speer CA, Whitmire WM, (1989) "Shedding of the immunodominant P20 surface antigen of Eimeria bovis sporozoites." <i>Infect Immun</i> <b>57</b>(3):999–1001; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/2645217 2645217]; GPMDB: [http://gpmdb.org/data/keyword/2645217 66]. | #Speer CA, Whitmire WM, (1989) "Shedding of the immunodominant P20 surface antigen of Eimeria bovis sporozoites." <i>Infect Immun</i> <b>57</b>(3):999–1001; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/2645217 2645217]; GPMDB: [http://gpmdb.org/data/keyword/2645217 66]. | ||
Line 1,068: | Line 1,068: | ||
#Supper V, Schiller HB, Paster W, Forster F, Boulègue C, Mitulovic G, Leksa V, Ohradanova-Repic A, Machacek C, Schatzlmaier P, Zlabinger GJ, Stockinger H, (2016) "Association of CD147 and Calcium Exporter PMCA4 Uncouples IL-2 Expression from Early TCR Signaling." <i>J Immunol</i> <b>196</b>(3):1387–99; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26729804 26729804]; doi: [https://dx.doi.org/10.4049/jimmunol.1501889 10.4049/jimmunol.1501889]; GPMDB: [http://gpmdb.org/data/keyword/26729804 27]. | #Supper V, Schiller HB, Paster W, Forster F, Boulègue C, Mitulovic G, Leksa V, Ohradanova-Repic A, Machacek C, Schatzlmaier P, Zlabinger GJ, Stockinger H, (2016) "Association of CD147 and Calcium Exporter PMCA4 Uncouples IL-2 Expression from Early TCR Signaling." <i>J Immunol</i> <b>196</b>(3):1387–99; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26729804 26729804]; doi: [https://dx.doi.org/10.4049/jimmunol.1501889 10.4049/jimmunol.1501889]; GPMDB: [http://gpmdb.org/data/keyword/26729804 27]. | ||
#Clark DJ, Fondrie WE, Yang A, Mao L, (2016) "Triple SILAC quantitative proteomic analysis reveals differential abundance of cell signaling proteins between normal and lung cancer-derived exosomes." <i>J Proteomics</i> <b>133</b>:161–9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26739763 26739763]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.12.023 10.1016/j.jprot.2015.12.023]; GPMDB: [http://gpmdb.org/data/keyword/26739763 3]. | #Clark DJ, Fondrie WE, Yang A, Mao L, (2016) "Triple SILAC quantitative proteomic analysis reveals differential abundance of cell signaling proteins between normal and lung cancer-derived exosomes." <i>J Proteomics</i> <b>133</b>:161–9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26739763 26739763]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.12.023 10.1016/j.jprot.2015.12.023]; GPMDB: [http://gpmdb.org/data/keyword/26739763 3]. | ||
+ | #Walton A, Stes E, Cybulski N, Van Bel M, Iñigo S, Durand AN, Timmerman E, Heyman J, Pauwels L, De Veylder L, Goossens A, De Smet I, Coppens F, Goormachtig S, Gevaert K, (2016) "It's Time for Some "Site"-Seeing: Novel Tools to Monitor the Ubiquitin Landscape in Arabidopsis thaliana." <i>Plant Cell</i> <b>28</b>(1):6–16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26744219 26744219]; doi: [https://dx.doi.org/10.1105/tpc.15.00878 10.1105/tpc.15.00878]; GPMDB: [http://gpmdb.org/data/keyword/26744219 110]. | ||
#Wandinger SK, Lahortiga I, Jacobs K, Klammer M, Jordan N, Elschenbroich S, Parade M, Jacoby E, Linders JT, Brehmer D, Cools J, Daub H, (2016) "Quantitative Phosphoproteomics Analysis of ERBB3/ERBB4 Signaling." <i>PLoS One</i> <b>11</b>(1):e0146100; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26745281 26745281]; doi: [https://dx.doi.org/10.1371/journal.pone.0146100 10.1371/journal.pone.0146100]; GPMDB: [http://gpmdb.org/data/keyword/26745281 72]. | #Wandinger SK, Lahortiga I, Jacobs K, Klammer M, Jordan N, Elschenbroich S, Parade M, Jacoby E, Linders JT, Brehmer D, Cools J, Daub H, (2016) "Quantitative Phosphoproteomics Analysis of ERBB3/ERBB4 Signaling." <i>PLoS One</i> <b>11</b>(1):e0146100; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26745281 26745281]; doi: [https://dx.doi.org/10.1371/journal.pone.0146100 10.1371/journal.pone.0146100]; GPMDB: [http://gpmdb.org/data/keyword/26745281 72]. | ||
#Christoforou A, Mulvey CM, Breckels LM, Geladaki A, Hurrell T, Hayward PC, Naake T, Gatto L, Viner R, Martinez Arias A, Lilley KS, (2016) "A draft map of the mouse pluripotent stem cell spatial proteome." <i>Nat Commun</i> <b>7</b>:8992; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26754106 26754106]; doi: [https://dx.doi.org/10.1038/ncomms9992 10.1038/ncomms9992]; GPMDB: [http://gpmdb.org/data/keyword/26754106 2]. | #Christoforou A, Mulvey CM, Breckels LM, Geladaki A, Hurrell T, Hayward PC, Naake T, Gatto L, Viner R, Martinez Arias A, Lilley KS, (2016) "A draft map of the mouse pluripotent stem cell spatial proteome." <i>Nat Commun</i> <b>7</b>:8992; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26754106 26754106]; doi: [https://dx.doi.org/10.1038/ncomms9992 10.1038/ncomms9992]; GPMDB: [http://gpmdb.org/data/keyword/26754106 2]. | ||
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#Virant-Klun I, Leicht S, Hughes C, Krijgsveld J, (2016) "Identification of Maturation-Specific Proteins by Single-Cell Proteomics of Human Oocytes." <i>Mol Cell Proteomics</i> <b>15</b>(8):2616–27; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27215607 27215607]; doi: [https://dx.doi.org/10.1074/mcp.M115.056887 10.1074/mcp.M115.056887]; GPMDB: [http://gpmdb.org/data/keyword/27215607 18]. | #Virant-Klun I, Leicht S, Hughes C, Krijgsveld J, (2016) "Identification of Maturation-Specific Proteins by Single-Cell Proteomics of Human Oocytes." <i>Mol Cell Proteomics</i> <b>15</b>(8):2616–27; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27215607 27215607]; doi: [https://dx.doi.org/10.1074/mcp.M115.056887 10.1074/mcp.M115.056887]; GPMDB: [http://gpmdb.org/data/keyword/27215607 18]. | ||
#Yu J, Storer BE, Kushekhar K, Abu Zaid M, Zhang Q, Gafken PR, Ogata Y, Martin PJ, Flowers ME, Hansen JA, Arora M, Cutler C, Jagasia M, Pidala J, Hamilton BK, Chen GL, Pusic I, Lee SJ, Paczesny S, (2016) "Biomarker Panel for Chronic Graft-Versus-Host Disease." <i>J Clin Oncol</i> <b>34</b>(22):2583–90; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27217465 27217465]; doi: [https://dx.doi.org/10.1200/JCO.2015.65.9615 10.1200/JCO.2015.65.9615]; GPMDB: [http://gpmdb.org/data/keyword/27217465 3]. | #Yu J, Storer BE, Kushekhar K, Abu Zaid M, Zhang Q, Gafken PR, Ogata Y, Martin PJ, Flowers ME, Hansen JA, Arora M, Cutler C, Jagasia M, Pidala J, Hamilton BK, Chen GL, Pusic I, Lee SJ, Paczesny S, (2016) "Biomarker Panel for Chronic Graft-Versus-Host Disease." <i>J Clin Oncol</i> <b>34</b>(22):2583–90; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27217465 27217465]; doi: [https://dx.doi.org/10.1200/JCO.2015.65.9615 10.1200/JCO.2015.65.9615]; GPMDB: [http://gpmdb.org/data/keyword/27217465 3]. | ||
- | #Wang B, Pfeiffer MJ, Drexler HC, Fuellen G, Boiani M, (2016) "Proteomic Analysis of Mouse Oocytes Identifies PRMT7 as a Reprogramming Factor that Replaces SOX2 in the Induction of Pluripotent Stem Cells." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27225728 27225728]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b01083 10.1021/acs.jproteome.5b01083]; GPMDB: [http://gpmdb.org/data/keyword/27225728 14]. | + | #Wang B, Pfeiffer MJ, Drexler HC, Fuellen G, Boiani M, (2016) "Proteomic Analysis of Mouse Oocytes Identifies PRMT7 as a Reprogramming Factor that Replaces SOX2 in the Induction of Pluripotent Stem Cells." <i>J Proteome Res</i> <b>15</b>(8):2407–21; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27225728 27225728]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b01083 10.1021/acs.jproteome.5b01083]; GPMDB: [http://gpmdb.org/data/keyword/27225728 14]. |
#Lobas AA, Karpov DS, Kopylov AT, Solovyeva EM, Ivanov MV, Ilina IY, Lazarev VN, Kuznetsova KG, Ilgisonis EV, Zgoda VG, Gorshkov MV, Moshkovskii SA, (2016) "Exome-based proteogenomics of HEK-293 human cell line: Coding genomic variants identified at the level of shotgun proteome." <i>Proteomics</i> <b>16</b>(14):1980–91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27233776 27233776]; doi: [https://dx.doi.org/10.1002/pmic.201500349 10.1002/pmic.201500349]; GPMDB: [http://gpmdb.org/data/keyword/27233776 7]. | #Lobas AA, Karpov DS, Kopylov AT, Solovyeva EM, Ivanov MV, Ilina IY, Lazarev VN, Kuznetsova KG, Ilgisonis EV, Zgoda VG, Gorshkov MV, Moshkovskii SA, (2016) "Exome-based proteogenomics of HEK-293 human cell line: Coding genomic variants identified at the level of shotgun proteome." <i>Proteomics</i> <b>16</b>(14):1980–91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27233776 27233776]; doi: [https://dx.doi.org/10.1002/pmic.201500349 10.1002/pmic.201500349]; GPMDB: [http://gpmdb.org/data/keyword/27233776 7]. | ||
#Lodrini M, Poschmann G, Schmidt V, Wünschel J, Dreidax D, Witt O, Höfer T, Meyer HE, Stühler K, Eggert A, Deubzer HE, (2016) "Minichromosome Maintenance Complex Is a Critical Node in the miR-183 Signaling Network of MYCN-Amplified Neuroblastoma Cells." <i>J Proteome Res</i> <b>15</b>(7):2178–86; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27239679 27239679]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00134 10.1021/acs.jproteome.6b00134]; GPMDB: [http://gpmdb.org/data/keyword/27239679 12]. | #Lodrini M, Poschmann G, Schmidt V, Wünschel J, Dreidax D, Witt O, Höfer T, Meyer HE, Stühler K, Eggert A, Deubzer HE, (2016) "Minichromosome Maintenance Complex Is a Critical Node in the miR-183 Signaling Network of MYCN-Amplified Neuroblastoma Cells." <i>J Proteome Res</i> <b>15</b>(7):2178–86; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27239679 27239679]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00134 10.1021/acs.jproteome.6b00134]; GPMDB: [http://gpmdb.org/data/keyword/27239679 12]. | ||
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#Wiśniewski JR, Mann M, (2016) "A Proteomics Approach to the Protein Normalization Problem: Selection of Unvarying Proteins for MS-Based Proteomics and Western Blotting." <i>J Proteome Res</i> <b>15</b>(7):2321–6; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27297043 27297043]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00403 10.1021/acs.jproteome.6b00403]; GPMDB: [http://gpmdb.org/data/keyword/27297043 64]. | #Wiśniewski JR, Mann M, (2016) "A Proteomics Approach to the Protein Normalization Problem: Selection of Unvarying Proteins for MS-Based Proteomics and Western Blotting." <i>J Proteome Res</i> <b>15</b>(7):2321–6; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27297043 27297043]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00403 10.1021/acs.jproteome.6b00403]; GPMDB: [http://gpmdb.org/data/keyword/27297043 64]. | ||
#Narasimhan PB, Bennuru S, Meng Z, Cotton RN, Elliott KR, Ganesan S, McDonald-Fleming R, Veenstra TD, Nutman TB, Semnani RT, (2016) "Microfilariae of Brugia malayi inhibit the mTOR pathway and induce autophagy in human dendritic cells." <i>Infect Immun</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27297394 27297394]; doi: [https://dx.doi.org/10.1128/IAI.00174-16 10.1128/IAI.00174-16]; GPMDB: [http://gpmdb.org/data/keyword/27297394 233]. | #Narasimhan PB, Bennuru S, Meng Z, Cotton RN, Elliott KR, Ganesan S, McDonald-Fleming R, Veenstra TD, Nutman TB, Semnani RT, (2016) "Microfilariae of Brugia malayi inhibit the mTOR pathway and induce autophagy in human dendritic cells." <i>Infect Immun</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27297394 27297394]; doi: [https://dx.doi.org/10.1128/IAI.00174-16 10.1128/IAI.00174-16]; GPMDB: [http://gpmdb.org/data/keyword/27297394 233]. | ||
- | #Rakus D, Gizak A, Wiśniewski JR, (2016) "Proteomics Unveils Fibroblast-Cardiomyocyte Lactate Shuttle and Hexokinase Paradox in Mouse Muscles." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27302655 27302655]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b01149 10.1021/acs.jproteome.5b01149]; GPMDB: [http://gpmdb.org/data/keyword/27302655 60]. | + | #Rakus D, Gizak A, Wiśniewski JR, (2016) "Proteomics Unveils Fibroblast-Cardiomyocyte Lactate Shuttle and Hexokinase Paradox in Mouse Muscles." <i>J Proteome Res</i> <b>15</b>(8):2479–90; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27302655 27302655]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b01149 10.1021/acs.jproteome.5b01149]; GPMDB: [http://gpmdb.org/data/keyword/27302655 60]. |
#Chick JM, Munger SC, Simecek P, Huttlin EL, Choi K, Gatti DM, Raghupathy N, Svenson KL, Churchill GA, Gygi SP, (2016) "Defining the consequences of genetic variation on a proteome-wide scale." <i>Nature</i> <b>534</b>(7608):500–5; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27309819 27309819]; doi: [https://dx.doi.org/10.1038/nature18270 10.1038/nature18270]; GPMDB: [http://gpmdb.org/data/keyword/27309819 27]. | #Chick JM, Munger SC, Simecek P, Huttlin EL, Choi K, Gatti DM, Raghupathy N, Svenson KL, Churchill GA, Gygi SP, (2016) "Defining the consequences of genetic variation on a proteome-wide scale." <i>Nature</i> <b>534</b>(7608):500–5; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27309819 27309819]; doi: [https://dx.doi.org/10.1038/nature18270 10.1038/nature18270]; GPMDB: [http://gpmdb.org/data/keyword/27309819 27]. | ||
#Madeira JP, Omer H, Alpha-Bazin B, Armengaud J, Duport C, (2016) "Deciphering the interactions between the Bacillus cereus linear plasmid, pBClin15, and its host by high-throughput comparative proteomics." <i>J Proteomics</i> <b>146</b>:25–33; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27321915 27321915]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.06.022 10.1016/j.jprot.2016.06.022]; GPMDB: [http://gpmdb.org/data/keyword/27321915 26]. | #Madeira JP, Omer H, Alpha-Bazin B, Armengaud J, Duport C, (2016) "Deciphering the interactions between the Bacillus cereus linear plasmid, pBClin15, and its host by high-throughput comparative proteomics." <i>J Proteomics</i> <b>146</b>:25–33; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27321915 27321915]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.06.022 10.1016/j.jprot.2016.06.022]; GPMDB: [http://gpmdb.org/data/keyword/27321915 26]. | ||
#Szklanna PB, Foy M, Wynne K, Byrne D, Maguire PB, (2016) "Analysis of the proteins associated with platelet detergent resistant membranes." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27329341 27329341]; doi: [https://dx.doi.org/10.1002/pmic.201500309 10.1002/pmic.201500309]; GPMDB: [http://gpmdb.org/data/keyword/27329341 18]. | #Szklanna PB, Foy M, Wynne K, Byrne D, Maguire PB, (2016) "Analysis of the proteins associated with platelet detergent resistant membranes." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27329341 27329341]; doi: [https://dx.doi.org/10.1002/pmic.201500309 10.1002/pmic.201500309]; GPMDB: [http://gpmdb.org/data/keyword/27329341 18]. | ||
- | #Ahrné E, Glatter T, Viganò C, Schubert | + | #Ahrné E, Glatter T, Viganò C, Schubert Cv, Nigg EA, Schmidt A, (2016) "Evaluation and Improvement of Quantification Accuracy in Isobaric Mass Tag-Based Protein Quantification Experiments." <i>J Proteome Res</i> <b>15</b>(8):2537–47; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27345528 27345528]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00066 10.1021/acs.jproteome.6b00066]; GPMDB: [http://gpmdb.org/data/keyword/27345528 41]. |
#Chaubey PM, Hofstetter L, Roschitzki B, Stieger B, (2016) "Proteomic Analysis of the Rat Canalicular Membrane Reveals Expression of a Complex System of P4-ATPases in Liver." <i>PLoS One</i> <b>11</b>(6):e0158033; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27347675 27347675]; doi: [https://dx.doi.org/10.1371/journal.pone.0158033 10.1371/journal.pone.0158033]; GPMDB: [http://gpmdb.org/data/keyword/27347675 60]. | #Chaubey PM, Hofstetter L, Roschitzki B, Stieger B, (2016) "Proteomic Analysis of the Rat Canalicular Membrane Reveals Expression of a Complex System of P4-ATPases in Liver." <i>PLoS One</i> <b>11</b>(6):e0158033; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27347675 27347675]; doi: [https://dx.doi.org/10.1371/journal.pone.0158033 10.1371/journal.pone.0158033]; GPMDB: [http://gpmdb.org/data/keyword/27347675 60]. | ||
#Rinschen MM, Schroeter CB, Koehler S, Ising C, Schermer B, Kann M, Benzing T, Brinkkoetter PT, (2016) "Quantitative deep-mapping of the cultured podocyte proteome uncovers shifts in proteostatic mechanisms during differentiation." <i>Am J Physiol Cell Physiol</i> <b></b>:ajpcell.00121.2016; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27357545 27357545]; doi: [https://dx.doi.org/10.1152/ajpcell.00121.2016 10.1152/ajpcell.00121.2016]; GPMDB: [http://gpmdb.org/data/keyword/27357545 3]. | #Rinschen MM, Schroeter CB, Koehler S, Ising C, Schermer B, Kann M, Benzing T, Brinkkoetter PT, (2016) "Quantitative deep-mapping of the cultured podocyte proteome uncovers shifts in proteostatic mechanisms during differentiation." <i>Am J Physiol Cell Physiol</i> <b></b>:ajpcell.00121.2016; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27357545 27357545]; doi: [https://dx.doi.org/10.1152/ajpcell.00121.2016 10.1152/ajpcell.00121.2016]; GPMDB: [http://gpmdb.org/data/keyword/27357545 3]. | ||
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#Sysoev VO, Fischer B, Frese CK, Gupta I, Krijgsveld J, Hentze MW, Castello A, Ephrussi A, (2016) "Global changes of the RNA-bound proteome during the maternal-to-zygotic transition in Drosophila." <i>Nat Commun</i> <b>7</b>:12128; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27378189 27378189]; doi: [https://dx.doi.org/10.1038/ncomms12128 10.1038/ncomms12128]; GPMDB: [http://gpmdb.org/data/keyword/27378189 25]. | #Sysoev VO, Fischer B, Frese CK, Gupta I, Krijgsveld J, Hentze MW, Castello A, Ephrussi A, (2016) "Global changes of the RNA-bound proteome during the maternal-to-zygotic transition in Drosophila." <i>Nat Commun</i> <b>7</b>:12128; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27378189 27378189]; doi: [https://dx.doi.org/10.1038/ncomms12128 10.1038/ncomms12128]; GPMDB: [http://gpmdb.org/data/keyword/27378189 25]. | ||
#Ashford P, Hernandez A, Greco TM, Buch A, Sodeik B, Cristea IM, Grunewald K, Shepherd A, Topf M, (2016) "HVint: A strategy for identifying novel protein-protein interactions in herpes simplex virus type 1." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27384951 27384951]; doi: [https://dx.doi.org/10.1074/mcp.M116.058552 10.1074/mcp.M116.058552]; GPMDB: [http://gpmdb.org/data/keyword/27384951 19]. | #Ashford P, Hernandez A, Greco TM, Buch A, Sodeik B, Cristea IM, Grunewald K, Shepherd A, Topf M, (2016) "HVint: A strategy for identifying novel protein-protein interactions in herpes simplex virus type 1." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27384951 27384951]; doi: [https://dx.doi.org/10.1074/mcp.M116.058552 10.1074/mcp.M116.058552]; GPMDB: [http://gpmdb.org/data/keyword/27384951 19]. | ||
- | #Picariello G, Addeo F, Ferranti P, Nocerino R, Paparo L, Passariello A, Dallas DC, Robinson RC, Barile D, Canani RB, (2016) "Antibody-independent identification of bovine milk-derived peptides in breast-milk." <i>Food Funct</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27396729 27396729]; doi: [https://dx.doi.org/10.1039/c6fo00731g 10.1039/c6fo00731g]; GPMDB: [http://gpmdb.org/data/keyword/27396729 12]. | + | #Picariello G, Addeo F, Ferranti P, Nocerino R, Paparo L, Passariello A, Dallas DC, Robinson RC, Barile D, Canani RB, (2016) "Antibody-independent identification of bovine milk-derived peptides in breast-milk." <i>Food Funct</i> <b>7</b>(8):3402–9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27396729 27396729]; doi: [https://dx.doi.org/10.1039/c6fo00731g 10.1039/c6fo00731g]; GPMDB: [http://gpmdb.org/data/keyword/27396729 12]. |
#Hampoelz B, Mackmull MT, Machado P, Ronchi P, Bui KH, Schieber N, Santarella-Mellwig R, Necakov A, Andrés-Pons A, Philippe JM, Lecuit T, Schwab Y, Beck M, (2016) "Pre-assembled Nuclear Pores Insert into the Nuclear Envelope during Early Development." <i>Cell</i> <b>166</b>(3):664–78; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27397507 27397507]; doi: [https://dx.doi.org/10.1016/j.cell.2016.06.015 10.1016/j.cell.2016.06.015]; GPMDB: [http://gpmdb.org/data/keyword/27397507 18]. | #Hampoelz B, Mackmull MT, Machado P, Ronchi P, Bui KH, Schieber N, Santarella-Mellwig R, Necakov A, Andrés-Pons A, Philippe JM, Lecuit T, Schwab Y, Beck M, (2016) "Pre-assembled Nuclear Pores Insert into the Nuclear Envelope during Early Development." <i>Cell</i> <b>166</b>(3):664–78; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27397507 27397507]; doi: [https://dx.doi.org/10.1016/j.cell.2016.06.015 10.1016/j.cell.2016.06.015]; GPMDB: [http://gpmdb.org/data/keyword/27397507 18]. | ||
+ | #Konstantinell A, Bruun JA, Olsen R, Aspar A, Škalko-Basnet N, Sveinbjørnsson B, Moens U, (2016) "Secretomic analysis of extracellular vesicles originating from Polyomavirus-negative and Polyomavirus-positive merkel cell carcinoma cell lines." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27402257 27402257]; doi: [https://dx.doi.org/10.1002/pmic.201600223 10.1002/pmic.201600223]; GPMDB: [http://gpmdb.org/data/keyword/27402257 28]. | ||
#Shraibman B, Melamed Kadosh D, Barnea E, Admon A, (2016) "HLA peptides derived from tumor antigens induced by inhibition of DNA methylation for development of drug-facilitated immunotherapy." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27412690 27412690]; doi: [https://dx.doi.org/10.1074/mcp.M116.060350 10.1074/mcp.M116.060350]; GPMDB: [http://gpmdb.org/data/keyword/27412690 60]. | #Shraibman B, Melamed Kadosh D, Barnea E, Admon A, (2016) "HLA peptides derived from tumor antigens induced by inhibition of DNA methylation for development of drug-facilitated immunotherapy." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27412690 27412690]; doi: [https://dx.doi.org/10.1074/mcp.M116.060350 10.1074/mcp.M116.060350]; GPMDB: [http://gpmdb.org/data/keyword/27412690 60]. | ||
#Müller S, Balaz M, Stefanicka P, Varga L, Amri EZ, Ukropec J, Wollscheid B, Wolfrum C, (2016) "Proteomic Analysis of Human Brown Adipose Tissue Reveals Utilization of Coupled and Uncoupled Energy Expenditure Pathways." <i>Sci Rep</i> <b>6</b>:30030; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27418403 27418403]; doi: [https://dx.doi.org/10.1038/srep30030 10.1038/srep30030]; GPMDB: [http://gpmdb.org/data/keyword/27418403 32]. | #Müller S, Balaz M, Stefanicka P, Varga L, Amri EZ, Ukropec J, Wollscheid B, Wolfrum C, (2016) "Proteomic Analysis of Human Brown Adipose Tissue Reveals Utilization of Coupled and Uncoupled Energy Expenditure Pathways." <i>Sci Rep</i> <b>6</b>:30030; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27418403 27418403]; doi: [https://dx.doi.org/10.1038/srep30030 10.1038/srep30030]; GPMDB: [http://gpmdb.org/data/keyword/27418403 32]. | ||
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#Suárez-Cortes P, Sharma V, Bertuccini L, Costa G, Bannerman NL, Sannella AR, Williamson K, Klemba M, Levashina EA, Lasonder E, Alano P, (2016) "Comparative proteomics and functional analysis reveal a role of P. falciparum osmiophilic bodies in malaria parasite transmission." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27432909 27432909]; doi: [https://dx.doi.org/10.1074/mcp.M116.060681 10.1074/mcp.M116.060681]; GPMDB: [http://gpmdb.org/data/keyword/27432909 162]. | #Suárez-Cortes P, Sharma V, Bertuccini L, Costa G, Bannerman NL, Sannella AR, Williamson K, Klemba M, Levashina EA, Lasonder E, Alano P, (2016) "Comparative proteomics and functional analysis reveal a role of P. falciparum osmiophilic bodies in malaria parasite transmission." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27432909 27432909]; doi: [https://dx.doi.org/10.1074/mcp.M116.060681 10.1074/mcp.M116.060681]; GPMDB: [http://gpmdb.org/data/keyword/27432909 162]. | ||
#Vandenbrouck Y, Lane L, Carapito C, Duek P, Rondel K, Bruley C, Macron C, Gonzalez de Peredo A, Couté Y, Chaoui K, Com E, Gateau A, Hesse AM, Marcellin M, Mear L, Mouton-Barbosa E, Robin T, Burlet-Schiltz O, Cianférani S, Ferro M, Freour T, Lindskog C, Garin J, Pineau C, (2016) "Looking for missing proteins in the proteome of human spermatozoa: an update." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27444420 27444420]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00400 10.1021/acs.jproteome.6b00400]; GPMDB: [http://gpmdb.org/data/keyword/27444420 108]. | #Vandenbrouck Y, Lane L, Carapito C, Duek P, Rondel K, Bruley C, Macron C, Gonzalez de Peredo A, Couté Y, Chaoui K, Com E, Gateau A, Hesse AM, Marcellin M, Mear L, Mouton-Barbosa E, Robin T, Burlet-Schiltz O, Cianférani S, Ferro M, Freour T, Lindskog C, Garin J, Pineau C, (2016) "Looking for missing proteins in the proteome of human spermatozoa: an update." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27444420 27444420]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00400 10.1021/acs.jproteome.6b00400]; GPMDB: [http://gpmdb.org/data/keyword/27444420 108]. | ||
+ | #Gautier EF, Ducamp S, Leduc M, Salnot V, Guillonneau F, Dussiot M, Hale J, Giarratana MC, Raimbault A, Douay L, Lacombe C, Mohandas N, Verdier F, Zermati Y, Mayeux P, (2016) "Comprehensive Proteomic Analysis of Human Erythropoiesis." <i>Cell Rep</i> <b>16</b>(5):1470–84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27452463 27452463]; doi: [https://dx.doi.org/10.1016/j.celrep.2016.06.085 10.1016/j.celrep.2016.06.085]; GPMDB: [http://gpmdb.org/data/keyword/27452463 101]. | ||
+ | #Castello A, Fischer B, Frese CK, Horos R, Alleaume AM, Foehr S, Curk T, Krijgsveld J, Hentze MW, (2016) "Comprehensive Identification of RNA-Binding Domains in Human Cells." <i>Mol Cell</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27453046 27453046]; doi: [https://dx.doi.org/10.1016/j.molcel.2016.06.029 10.1016/j.molcel.2016.06.029]; GPMDB: [http://gpmdb.org/data/keyword/27453046 1]. | ||
#Thomsen MS, Birkelund S, Burkhart A, Stensballe A, Moos T, (2016) "Synthesis and deposition of basement membrane proteins by primary brain capillary endothelial cells in a murine model of the blood-brain barrier." <i>J Neurochem</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27456748 27456748]; doi: [https://dx.doi.org/10.1111/jnc.13747 10.1111/jnc.13747]; GPMDB: [http://gpmdb.org/data/keyword/27456748 12]. | #Thomsen MS, Birkelund S, Burkhart A, Stensballe A, Moos T, (2016) "Synthesis and deposition of basement membrane proteins by primary brain capillary endothelial cells in a murine model of the blood-brain barrier." <i>J Neurochem</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27456748 27456748]; doi: [https://dx.doi.org/10.1111/jnc.13747 10.1111/jnc.13747]; GPMDB: [http://gpmdb.org/data/keyword/27456748 12]. | ||
- | #Liu Z, Wang F, Chen J, Zhou Y, Zou H, (2016) "Modulating the selectivity of affinity absorbents to multi-phosphopeptides by a competitive substitution strategy." <i>J Chromatogr A</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27470094 27470094]; doi: [https://dx.doi.org/10.1016/j.chroma.2016.07.042 10.1016/j.chroma.2016.07.042]; GPMDB: [http://gpmdb.org/data/keyword/27470094 9]. | + | #Osinalde N, Sanchez-Quiles V, Akimov V, Aloria K, Arizmendi JM, Blagoev B, Kratchmarova I, (2016) "Characterization of receptor-associated protein complex assembly in Interleukin (IL)-2- and IL-15-activated T-cell lines." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27463037 27463037]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00233 10.1021/acs.jproteome.6b00233]; GPMDB: [http://gpmdb.org/data/keyword/27463037 55]. |
+ | #Liu Z, Wang F, Chen J, Zhou Y, Zou H, (2016) "Modulating the selectivity of affinity absorbents to multi-phosphopeptides by a competitive substitution strategy." <i>J Chromatogr A</i> <b>1461</b>:35–41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27470094 27470094]; doi: [https://dx.doi.org/10.1016/j.chroma.2016.07.042 10.1016/j.chroma.2016.07.042]; GPMDB: [http://gpmdb.org/data/keyword/27470094 9]. | ||
+ | #Uyy E, Suica VI, Boteanu RM, Manda D, Baciu AE, Badiu C, Antohe F, (2016) "Endoplasmic reticulum chaperones are potential active factors in thyroid tumorigenesis." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27480176 27480176]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00567 10.1021/acs.jproteome.6b00567]; GPMDB: [http://gpmdb.org/data/keyword/27480176 4]. |
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 August 14, 2016.