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==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 June | + | 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 June 11, 2017. |
#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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#Wu X, Zahari MS, Renuse S, Nirujogi RS, Kim MS, Manda SS, Stearns V, Gabrielson E, Sukumar S, Pandey A, (2015) "Phosphoproteomic Analysis Identifies Focal Adhesion Kinase 2 (FAK2) as a Potential Therapeutic Target for Tamoxifen Resistance in Breast Cancer." <i>Mol Cell Proteomics</i> <b>14</b>(11):2887–900; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26330541 26330541]; doi: [https://dx.doi.org/10.1074/mcp.M115.050484 10.1074/mcp.M115.050484]; GPMDB: [http://gpmdb.org/data/keyword/26330541 29]. | #Wu X, Zahari MS, Renuse S, Nirujogi RS, Kim MS, Manda SS, Stearns V, Gabrielson E, Sukumar S, Pandey A, (2015) "Phosphoproteomic Analysis Identifies Focal Adhesion Kinase 2 (FAK2) as a Potential Therapeutic Target for Tamoxifen Resistance in Breast Cancer." <i>Mol Cell Proteomics</i> <b>14</b>(11):2887–900; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26330541 26330541]; doi: [https://dx.doi.org/10.1074/mcp.M115.050484 10.1074/mcp.M115.050484]; GPMDB: [http://gpmdb.org/data/keyword/26330541 29]. | ||
#Duhamel M, Rodet F, Delhem N, Vanden Abeele F, Kobeissy F, Nataf S, Pays L, Desjardins R, Gagnon H, Wisztorski M, Fournier I, Day R, Salzet M, (2015) "Molecular Consequences of Proprotein Convertase 1/3 (PC1/3) Inhibition in Macrophages for Application to Cancer Immunotherapy: A Proteomic Study." <i>Mol Cell Proteomics</i> <b>14</b>(11):2857–77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26330543 26330543]; doi: [https://dx.doi.org/10.1074/mcp.M115.052480 10.1074/mcp.M115.052480]; GPMDB: [http://gpmdb.org/data/keyword/26330543 18]. | #Duhamel M, Rodet F, Delhem N, Vanden Abeele F, Kobeissy F, Nataf S, Pays L, Desjardins R, Gagnon H, Wisztorski M, Fournier I, Day R, Salzet M, (2015) "Molecular Consequences of Proprotein Convertase 1/3 (PC1/3) Inhibition in Macrophages for Application to Cancer Immunotherapy: A Proteomic Study." <i>Mol Cell Proteomics</i> <b>14</b>(11):2857–77; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26330543 26330543]; doi: [https://dx.doi.org/10.1074/mcp.M115.052480 10.1074/mcp.M115.052480]; GPMDB: [http://gpmdb.org/data/keyword/26330543 18]. | ||
+ | #Liebensteiner MG, Pinkse MW, Nijsse B, Verhaert PD, Tsesmetzis N, Stams AJ, Lomans BP, (2015) "Perchlorate and chlorate reduction by the Crenarchaeon Aeropyrum pernix and two thermophilic Firmicutes." <i>Environ Microbiol Rep</i> <b>7</b>(6):936–45; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26332065 26332065]; doi: [https://dx.doi.org/10.1111/1758-2229.12335 10.1111/1758-2229.12335]; GPMDB: [http://gpmdb.org/data/keyword/26332065 12]. | ||
#Lluch-Senar M, Cozzuto L, Cano J, Delgado J, Llórens-Rico V, Pereyre S, Bebear C, Serrano L, (2015) "Comparative "-omics" in Mycoplasma pneumoniae Clinical Isolates Reveals Key Virulence Factors." <i>PLoS One</i> <b>10</b>(9):e0137354; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26335586 26335586]; doi: [https://dx.doi.org/10.1371/journal.pone.0137354 10.1371/journal.pone.0137354]; GPMDB: [http://gpmdb.org/data/keyword/26335586 25]. | #Lluch-Senar M, Cozzuto L, Cano J, Delgado J, Llórens-Rico V, Pereyre S, Bebear C, Serrano L, (2015) "Comparative "-omics" in Mycoplasma pneumoniae Clinical Isolates Reveals Key Virulence Factors." <i>PLoS One</i> <b>10</b>(9):e0137354; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26335586 26335586]; doi: [https://dx.doi.org/10.1371/journal.pone.0137354 10.1371/journal.pone.0137354]; GPMDB: [http://gpmdb.org/data/keyword/26335586 25]. | ||
#White CH, Johnston HE, Moesker B, Manousopoulou A, Margolis DM, Richman DD, Spina CA, Garbis SD, Woelk CH, Beliakova-Bethell N, (2015) "Mixed effects of suberoylanilide hydroxamic acid (SAHA) on the host transcriptome and proteome and their implications for HIV reactivation from latency." <i>Antiviral Res</i> <b>123</b>:78–85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26343910 26343910]; doi: [https://dx.doi.org/10.1016/j.antiviral.2015.09.002 10.1016/j.antiviral.2015.09.002]; GPMDB: [http://gpmdb.org/data/keyword/26343910 172]. | #White CH, Johnston HE, Moesker B, Manousopoulou A, Margolis DM, Richman DD, Spina CA, Garbis SD, Woelk CH, Beliakova-Bethell N, (2015) "Mixed effects of suberoylanilide hydroxamic acid (SAHA) on the host transcriptome and proteome and their implications for HIV reactivation from latency." <i>Antiviral Res</i> <b>123</b>:78–85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26343910 26343910]; doi: [https://dx.doi.org/10.1016/j.antiviral.2015.09.002 10.1016/j.antiviral.2015.09.002]; GPMDB: [http://gpmdb.org/data/keyword/26343910 172]. | ||
Line 1,530: | Line 1,531: | ||
#Treiber T, Treiber N, Plessmann U, Harlander S, Daiß JL, Eichner N, Lehmann G, Schall K, Urlaub H, Meister G, (2017) "A Compendium of RNA-Binding Proteins that Regulate MicroRNA Biogenesis." <i>Mol Cell</i> <b>66</b>(2):270–284.e13; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28431233 28431233]; doi: [https://dx.doi.org/10.1016/j.molcel.2017.03.014 10.1016/j.molcel.2017.03.014]; GPMDB: [http://gpmdb.org/data/keyword/28431233 3033]. | #Treiber T, Treiber N, Plessmann U, Harlander S, Daiß JL, Eichner N, Lehmann G, Schall K, Urlaub H, Meister G, (2017) "A Compendium of RNA-Binding Proteins that Regulate MicroRNA Biogenesis." <i>Mol Cell</i> <b>66</b>(2):270–284.e13; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28431233 28431233]; doi: [https://dx.doi.org/10.1016/j.molcel.2017.03.014 10.1016/j.molcel.2017.03.014]; GPMDB: [http://gpmdb.org/data/keyword/28431233 3033]. | ||
#Beyene GT, Kalayou S, Riaz T, Tonjum T, (2017) "Comparative proteomic analysis of Neisseria meningitidis wildtype and dprA null mutant strains links DNA processing to pilus biogenesis." <i>BMC Microbiol</i> <b>17</b>(1):96; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28431522 28431522]; doi: [https://dx.doi.org/10.1186/s12866-017-1004-8 10.1186/s12866-017-1004-8]; GPMDB: [http://gpmdb.org/data/keyword/28431522 108]. | #Beyene GT, Kalayou S, Riaz T, Tonjum T, (2017) "Comparative proteomic analysis of Neisseria meningitidis wildtype and dprA null mutant strains links DNA processing to pilus biogenesis." <i>BMC Microbiol</i> <b>17</b>(1):96; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28431522 28431522]; doi: [https://dx.doi.org/10.1186/s12866-017-1004-8 10.1186/s12866-017-1004-8]; GPMDB: [http://gpmdb.org/data/keyword/28431522 108]. | ||
+ | #Xu B, Gao Y, Zhan S, Ge W, (2017) "Quantitative proteomic profiling for clarification of the crucial roles of lysosomes in microbial infections." <i>Mol Immunol</i> <b>87</b>:122–131; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28433889 28433889]; doi: [https://dx.doi.org/10.1016/j.molimm.2017.04.002 10.1016/j.molimm.2017.04.002]; GPMDB: [http://gpmdb.org/data/keyword/28433889 2]. | ||
+ | #Clulow JA, Storck EM, Lanyon-Hogg T, Kalesh KA, Jones LH, Tate EW, (2017) "Competition-based, quantitative chemical proteomics in breast cancer cells identifies new target profiles for sulforaphane." <i>Chem Commun (Camb)</i> <b>53</b>(37):5182–5185; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28439590 28439590]; doi: [https://dx.doi.org/10.1039/c6cc08797c 10.1039/c6cc08797c]; GPMDB: [http://gpmdb.org/data/keyword/28439590 32]. | ||
#Nguyen EV, Huhtinen K, Goo YA, Kaipio K, Andersson N, Rantanen V, Hynninen J, Lahesmaa R, Carpen O, Goodlett DR, (2017) "Hyper-phosphorylation of Sequestosome-1 distinguishes resistance to cisplatin in patient derived high grade serous ovarian cancer cells." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28455291 28455291]; doi: [https://dx.doi.org/10.1074/mcp.M116.058321 10.1074/mcp.M116.058321]; GPMDB: [http://gpmdb.org/data/keyword/28455291 60]. | #Nguyen EV, Huhtinen K, Goo YA, Kaipio K, Andersson N, Rantanen V, Hynninen J, Lahesmaa R, Carpen O, Goodlett DR, (2017) "Hyper-phosphorylation of Sequestosome-1 distinguishes resistance to cisplatin in patient derived high grade serous ovarian cancer cells." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28455291 28455291]; doi: [https://dx.doi.org/10.1074/mcp.M116.058321 10.1074/mcp.M116.058321]; GPMDB: [http://gpmdb.org/data/keyword/28455291 60]. | ||
#Tran TT, Strozynski M, Thiede B, (2017) "Quantitative phosphoproteome analysis of cisplatin-induced apoptosis in Jurkat T cells." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28464451 28464451]; doi: [https://dx.doi.org/10.1002/pmic.201600470 10.1002/pmic.201600470]; GPMDB: [http://gpmdb.org/data/keyword/28464451 32]. | #Tran TT, Strozynski M, Thiede B, (2017) "Quantitative phosphoproteome analysis of cisplatin-induced apoptosis in Jurkat T cells." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28464451 28464451]; doi: [https://dx.doi.org/10.1002/pmic.201600470 10.1002/pmic.201600470]; GPMDB: [http://gpmdb.org/data/keyword/28464451 32]. | ||
+ | #Ooi JD, Petersen J, Tan YH, Huynh M, Willett ZJ, Ramarathinam SH, Eggenhuizen PJ, Loh KL, Watson KA, Gan PY, Alikhan MA, Dudek NL, Handel A, Hudson BG, Fugger L, Power DA, Holt SG, Coates PT, Gregersen JW, Purcell AW, Holdsworth SR, La Gruta NL, Reid HH, Rossjohn J, Kitching AR, (2017) "Dominant protection from HLA-linked autoimmunity by antigen-specific regulatory T cells." <i>Nature</i> <b>545</b>(7653):243–247; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28467828 28467828]; doi: [https://dx.doi.org/10.1038/nature22329 10.1038/nature22329]; GPMDB: [http://gpmdb.org/data/keyword/28467828 30]. | ||
#van Aalderen MC, van den Biggelaar M, Remmerswaal EBM, van Alphen FPJ, Meijer AB, Ten Berge IJM, van Lier RAW, (2017) "Label-free Analysis of CD8<sup>+</sup> T Cell Subset Proteomes Supports a Progressive Differentiation Model of Human-Virus-Specific T Cells." <i>Cell Rep</i> <b>19</b>(5):1068–1079; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28467900 28467900]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.04.014 10.1016/j.celrep.2017.04.014]; GPMDB: [http://gpmdb.org/data/keyword/28467900 84]. | #van Aalderen MC, van den Biggelaar M, Remmerswaal EBM, van Alphen FPJ, Meijer AB, Ten Berge IJM, van Lier RAW, (2017) "Label-free Analysis of CD8<sup>+</sup> T Cell Subset Proteomes Supports a Progressive Differentiation Model of Human-Virus-Specific T Cells." <i>Cell Rep</i> <b>19</b>(5):1068–1079; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28467900 28467900]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.04.014 10.1016/j.celrep.2017.04.014]; GPMDB: [http://gpmdb.org/data/keyword/28467900 84]. | ||
#Tello-Lafoz M, Martínez-Martínez G, Rodríguez-Rodríguez C, Albar JP, Huse M, Gharbi S, Merida I, (2017) "SNX27 interactome in T lymphocytes identifies ZO-2 dynamic redistribution at the immune synapse." <i>Traffic</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28477369 28477369]; doi: [https://dx.doi.org/10.1111/tra.12492 10.1111/tra.12492]; GPMDB: [http://gpmdb.org/data/keyword/28477369 57]. | #Tello-Lafoz M, Martínez-Martínez G, Rodríguez-Rodríguez C, Albar JP, Huse M, Gharbi S, Merida I, (2017) "SNX27 interactome in T lymphocytes identifies ZO-2 dynamic redistribution at the immune synapse." <i>Traffic</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28477369 28477369]; doi: [https://dx.doi.org/10.1111/tra.12492 10.1111/tra.12492]; GPMDB: [http://gpmdb.org/data/keyword/28477369 57]. | ||
Line 1,537: | Line 1,541: | ||
#Murr A, Pink C, Hammer E, Michalik S, Dhople VM, Holtfreter B, Völker U, Kocher T, Gesell Salazar M, (2017) "Cross-Sectional Association of Salivary Proteins with Age, Sex, Body Mass Index, Smoking, and Education." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28481548 28481548]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00133 10.1021/acs.jproteome.7b00133]; GPMDB: [http://gpmdb.org/data/keyword/28481548 209]. | #Murr A, Pink C, Hammer E, Michalik S, Dhople VM, Holtfreter B, Völker U, Kocher T, Gesell Salazar M, (2017) "Cross-Sectional Association of Salivary Proteins with Age, Sex, Body Mass Index, Smoking, and Education." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28481548 28481548]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00133 10.1021/acs.jproteome.7b00133]; GPMDB: [http://gpmdb.org/data/keyword/28481548 209]. | ||
#Kilpinen H, Goncalves A, Leha A, Afzal V, Alasoo K, Ashford S, Bala S, Bensaddek D, Casale FP, Culley OJ, Danecek P, Faulconbridge A, Harrison PW, Kathuria A, McCarthy D, McCarthy SA, Meleckyte R, Memari Y, Moens N, Soares F, Mann A, Streeter I, Agu CA, Alderton A, Nelson R, Harper S, Patel M, White A, Patel SR, Clarke L, Halai R, Kirton CM, Kolb-Kokocinski A, Beales P, Birney E, Danovi D, Lamond AI, Ouwehand WH, Vallier L, Watt FM, Durbin R, Stegle O, Gaffney DJ, (2017) "Common genetic variation drives molecular heterogeneity in human iPSCs." <i>Nature</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28489815 28489815]; doi: [https://dx.doi.org/10.1038/nature22403 10.1038/nature22403]; GPMDB: [http://gpmdb.org/data/keyword/28489815 72]. | #Kilpinen H, Goncalves A, Leha A, Afzal V, Alasoo K, Ashford S, Bala S, Bensaddek D, Casale FP, Culley OJ, Danecek P, Faulconbridge A, Harrison PW, Kathuria A, McCarthy D, McCarthy SA, Meleckyte R, Memari Y, Moens N, Soares F, Mann A, Streeter I, Agu CA, Alderton A, Nelson R, Harper S, Patel M, White A, Patel SR, Clarke L, Halai R, Kirton CM, Kolb-Kokocinski A, Beales P, Birney E, Danovi D, Lamond AI, Ouwehand WH, Vallier L, Watt FM, Durbin R, Stegle O, Gaffney DJ, (2017) "Common genetic variation drives molecular heterogeneity in human iPSCs." <i>Nature</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28489815 28489815]; doi: [https://dx.doi.org/10.1038/nature22403 10.1038/nature22403]; GPMDB: [http://gpmdb.org/data/keyword/28489815 72]. | ||
- | #Kramer DA, Eldeeb MA, Wuest M, Mercer J, Fahlman RP, (2017) "Proteomic characterization of EL4 lymphoma derived tumors upon chemotherapy treatment reveals potential roles for lysosomes and caspase-6 during tumor cell death in vivo." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28508578 28508578]; doi: [https://dx.doi.org/10.1002/pmic.201700060 10.1002/pmic.201700060]; GPMDB: [http://gpmdb.org/data/keyword/28508578 | + | #Jahn A, Rane G, Paszkowski-Rogacz M, Sayols S, Bluhm A, Han CT, Draškovič I, Londoño-Vallejo JA, Kumar AP, Buchholz F, Butter F, Kappei D, (2017) "ZBTB48 is both a vertebrate telomere-binding protein and a transcriptional activator." <i>EMBO Rep</i> <b>18</b>(6):929–946; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28500257 28500257]; doi: [https://dx.doi.org/10.15252/embr.201744095 10.15252/embr.201744095]; GPMDB: [http://gpmdb.org/data/keyword/28500257 35]. |
+ | #Kramer DA, Eldeeb MA, Wuest M, Mercer J, Fahlman RP, (2017) "Proteomic characterization of EL4 lymphoma derived tumors upon chemotherapy treatment reveals potential roles for lysosomes and caspase-6 during tumor cell death in vivo." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28508578 28508578]; doi: [https://dx.doi.org/10.1002/pmic.201700060 10.1002/pmic.201700060]; GPMDB: [http://gpmdb.org/data/keyword/28508578 150]. | ||
+ | #Peng W, Zhang Y, Zhu R, Mechref Y, (2017) "Comparative Membrane Proteomics Analyses of Breast Cancer Cell Lines to Understand the Molecular Mechanism of Breast Cancer Brain Metastasis." <i>Electrophoresis</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28523741 28523741]; doi: [https://dx.doi.org/10.1002/elps.201700027 10.1002/elps.201700027]; GPMDB: [http://gpmdb.org/data/keyword/28523741 18]. | ||
+ | #Yimer SA, Birhanu AG, Kalayou S, Riaz T, Zegeye ED, Beyene GT, Holm-Hansen C, Norheim G, Abebe M, Aseffa A, Tønjum T, (2017) "Comparative Proteomic Analysis of <i>Mycobacterium tuberculosis</i> Lineage 7 and Lineage 4 Strains Reveals Differentially Abundant Proteins Linked to Slow Growth and Virulence." <i>Front Microbiol</i> <b>8</b>:795; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28536560 28536560]; doi: [https://dx.doi.org/10.3389/fmicb.2017.00795 10.3389/fmicb.2017.00795]; GPMDB: [http://gpmdb.org/data/keyword/28536560 158]. | ||
+ | #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 5]. | ||
+ | #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]. | ||
+ | #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 39]. |
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.
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 June 11, 2017.