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#Kozlov SV, Waardenberg AJ, Engholm-Keller K, Arthur JW, Graham ME, Lavin MF, (2015) "ROS-activated ATM-dependent phosphorylation of cytoplasmic substrates identified by large scale phosphoproteomics screen." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26699800 26699800]; doi: [https://dx.doi.org/10.1074/mcp.M115.055723 10.1074/mcp.M115.055723]; GPMDB: [http://gpmdb.org/data/keyword/26699800 141]. | #Kozlov SV, Waardenberg AJ, Engholm-Keller K, Arthur JW, Graham ME, Lavin MF, (2015) "ROS-activated ATM-dependent phosphorylation of cytoplasmic substrates identified by large scale phosphoproteomics screen." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26699800 26699800]; doi: [https://dx.doi.org/10.1074/mcp.M115.055723 10.1074/mcp.M115.055723]; GPMDB: [http://gpmdb.org/data/keyword/26699800 141]. | ||
#El Ouaamari A, Dirice E, Gedeon N, Hu J, Zhou JY, Shirakawa J, Hou L, Goodman J, Karampelias C, Qiang G, Boucher J, Martinez R, Gritsenko MA, De Jesus DF, Kahraman S, Bhatt S, Smith RD, Beer HD, Jungtrakoon P, Gong Y, Goldfine AB, Liew CW, Doria A, Andersson O, Qian WJ, Remold-O'Donnell E, Kulkarni RN, (2016) "SerpinB1 Promotes Pancreatic β Cell Proliferation." <i>Cell Metab</i> <b>23</b>(1):194–205; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26701651 26701651]; doi: [https://dx.doi.org/10.1016/j.cmet.2015.12.001 10.1016/j.cmet.2015.12.001]; GPMDB: [http://gpmdb.org/data/keyword/26701651 4]. | #El Ouaamari A, Dirice E, Gedeon N, Hu J, Zhou JY, Shirakawa J, Hou L, Goodman J, Karampelias C, Qiang G, Boucher J, Martinez R, Gritsenko MA, De Jesus DF, Kahraman S, Bhatt S, Smith RD, Beer HD, Jungtrakoon P, Gong Y, Goldfine AB, Liew CW, Doria A, Andersson O, Qian WJ, Remold-O'Donnell E, Kulkarni RN, (2016) "SerpinB1 Promotes Pancreatic β Cell Proliferation." <i>Cell Metab</i> <b>23</b>(1):194–205; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26701651 26701651]; doi: [https://dx.doi.org/10.1016/j.cmet.2015.12.001 10.1016/j.cmet.2015.12.001]; GPMDB: [http://gpmdb.org/data/keyword/26701651 4]. | ||
- | #Lluch-Senar M, Mancuso FM, Climente-González H, Peña-Paz MI, Sabido E, Serrano L, ( | + | #Lluch-Senar M, Mancuso FM, Climente-González H, Peña-Paz MI, Sabido E, Serrano L, (2016) "Rescuing discarded spectra: Full comprehensive analysis of a minimal proteome." <i>Proteomics</i> <b>16</b>(4):554–63; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26702875 26702875]; doi: [https://dx.doi.org/10.1002/pmic.201500187 10.1002/pmic.201500187]; GPMDB: [http://gpmdb.org/data/keyword/26702875 2]. |
#Thierry E, Guilligay D, Kosinski J, Bock T, Gaudon S, Round A, Pflug A, Hengrung N, El Omari K, Baudin F, Hart DJ, Beck M, Cusack S, (2016) "Influenza Polymerase Can Adopt an Alternative Configuration Involving a Radical Repacking of PB2 Domains." <i>Mol Cell</i> <b>61</b>(1):125–37; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26711008 26711008]; doi: [https://dx.doi.org/10.1016/j.molcel.2015.11.016 10.1016/j.molcel.2015.11.016]; GPMDB: [http://gpmdb.org/data/keyword/26711008 44]. | #Thierry E, Guilligay D, Kosinski J, Bock T, Gaudon S, Round A, Pflug A, Hengrung N, El Omari K, Baudin F, Hart DJ, Beck M, Cusack S, (2016) "Influenza Polymerase Can Adopt an Alternative Configuration Involving a Radical Repacking of PB2 Domains." <i>Mol Cell</i> <b>61</b>(1):125–37; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26711008 26711008]; doi: [https://dx.doi.org/10.1016/j.molcel.2015.11.016 10.1016/j.molcel.2015.11.016]; GPMDB: [http://gpmdb.org/data/keyword/26711008 44]. | ||
#Bigenzahn JW, Fauster A, Rebsamen M, Kandasamy RK, Scorzoni S, Vladimer GI, Mueller AC, Gstaiger M, Zuber J, Bennett KL, Superti-Furga G, (2015) "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]. | ||
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#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):411–21; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26718741 26718741]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00589 10.1021/acs.jproteome.5b00589]; GPMDB: [http://gpmdb.org/data/keyword/26718741 27]. | #McAfee A, Harpur BA, Michaud S, Beavis RC, Kent CF, Zayed A, Foster LJ, (2016) "Toward an Upgraded Honey Bee (Apis mellifera L.) Genome Annotation Using Proteogenomics." <i>J Proteome Res</i> <b>15</b>(2):411–21; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26718741 26718741]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00589 10.1021/acs.jproteome.5b00589]; GPMDB: [http://gpmdb.org/data/keyword/26718741 27]. | ||
#Li Q, Chang Z, Oliveira G, Xiong M, Smith LM, Frey BL, Welham NV, (2016) "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 381]. |
#Laumont CM, Daouda T, Laverdure JP, Bonneil É, Caron-Lizotte O, Hardy MP, Granados DP, Durette C, Lemieux S, Thibault P, Perreault C, (2016) "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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#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]. | ||
- | #Kollipara L, Buchkremer S, Weis J, Brauers E, Hoss M, Rütten S, Caviedes P, Zahedi RP, Roos A, (2016) "Proteome | + | #Kollipara L, Buchkremer S, Weis J, Brauers E, Hoss M, Rütten S, Caviedes P, Zahedi RP, Roos A, (2016) "Proteome Profiling and Ultrastructural Characterization of the Human RCMH Cell Line: Myoblastic Properties and Suitability for Myopathological Studies." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26781476 26781476]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00972 10.1021/acs.jproteome.5b00972]; GPMDB: [http://gpmdb.org/data/keyword/26781476 1]. |
#Fang Y, Zhang Q, Wang X, Yang X, Wang X, Huang Z, Jiao Y, Wang J, (2016) "Quantitative phosphoproteomics reveals genistein as a modulator of cell cycle and DNA damage response pathways in triple-negative breast cancer cells." <i>Int J Oncol</i> <b>48</b>(3):1016–28; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26783066 26783066]; doi: [https://dx.doi.org/10.3892/ijo.2016.3327 10.3892/ijo.2016.3327]; GPMDB: [http://gpmdb.org/data/keyword/26783066 2]. | #Fang Y, Zhang Q, Wang X, Yang X, Wang X, Huang Z, Jiao Y, Wang J, (2016) "Quantitative phosphoproteomics reveals genistein as a modulator of cell cycle and DNA damage response pathways in triple-negative breast cancer cells." <i>Int J Oncol</i> <b>48</b>(3):1016–28; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26783066 26783066]; doi: [https://dx.doi.org/10.3892/ijo.2016.3327 10.3892/ijo.2016.3327]; GPMDB: [http://gpmdb.org/data/keyword/26783066 2]. | ||
#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]. | ||
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#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]. | ||
#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]. | #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]. | ||
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#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]. | #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]. | ||
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#Chidiac R, Zhang Y, Tessier S, Faubert D, Delisle C, Gratton JP, (2016) "Comparative phosphoproteomics analysis of VEGF and Angiopoietin-1 signaling reveals ZO-1 as a critical regulator of endothelial cell proliferation." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26846344 26846344]; doi: [https://dx.doi.org/10.1074/mcp.M115.053298 10.1074/mcp.M115.053298]; GPMDB: [http://gpmdb.org/data/keyword/26846344 13]. | #Chidiac R, Zhang Y, Tessier S, Faubert D, Delisle C, Gratton JP, (2016) "Comparative phosphoproteomics analysis of VEGF and Angiopoietin-1 signaling reveals ZO-1 as a critical regulator of endothelial cell proliferation." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26846344 26846344]; doi: [https://dx.doi.org/10.1074/mcp.M115.053298 10.1074/mcp.M115.053298]; GPMDB: [http://gpmdb.org/data/keyword/26846344 13]. | ||
#Meierhofer D, Halbach M, Sen NE, Gispert S, Auburger G, (2016) "Atxn2-Knock-Out mice show branched chain amino acids and fatty acids pathway alterations." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26850065 26850065]; doi: [https://dx.doi.org/10.1074/mcp.M115.056770 10.1074/mcp.M115.056770]; GPMDB: [http://gpmdb.org/data/keyword/26850065 48]. | #Meierhofer D, Halbach M, Sen NE, Gispert S, Auburger G, (2016) "Atxn2-Knock-Out mice show branched chain amino acids and fatty acids pathway alterations." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26850065 26850065]; doi: [https://dx.doi.org/10.1074/mcp.M115.056770 10.1074/mcp.M115.056770]; GPMDB: [http://gpmdb.org/data/keyword/26850065 48]. | ||
- | #Gielisch I, Hardt C, Wittig I, Meierhofer D, (2016) "An impaired respiratory electron chain triggers down-regulation of the energy metabolism and de-ubiquitination of solute carrier amino acid transporters." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26852163 26852163]; doi: [https://dx.doi.org/10.1074/mcp.M115.053181 10.1074/mcp.M115.053181]; GPMDB: [http://gpmdb.org/data/keyword/26852163 8]. | + | #Gielisch I, Hardt C, Wittig I, Meierhofer D, (2016) "An impaired respiratory electron chain triggers down-regulation of the energy metabolism and de-ubiquitination of solute carrier amino acid transporters." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26852163 26852163]; doi: [https://dx.doi.org/10.1074/mcp.M115.053181 10.1074/mcp.M115.053181]; GPMDB: [http://gpmdb.org/data/keyword/26852163 36]. |
- | #Billing AM, Ben Hamidane H, Dib SS, Cotton RJ, Bhagwat AM, Kumar P, Hayat S, Yousri NA, Goswami N, Suhre K, Rafii A, Graumann J, (2016) "Comprehensive transcriptomic and proteomic characterization of human mesenchymal stem cells reveals source specific cellular markers." <i>Sci Rep</i> <b>6</b>:21507; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26857143 26857143]; doi: [https://dx.doi.org/10.1038/srep21507 10.1038/srep21507]; GPMDB: [http://gpmdb.org/data/keyword/26857143 | + | #Peffers MJ, Collins J, Fang Y, Goljanek-Whysall K, Rushton M, Loughlin J, Proctor C, Clegg PD, (2016) "Age-related changes in mesenchymal stem cells identified using a multi-omics approach." <i>Eur Cell Mater</i> <b>31</b>:136–59; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26853623 26853623]; GPMDB: [http://gpmdb.org/data/keyword/26853623 8]. |
+ | #Billing AM, Ben Hamidane H, Dib SS, Cotton RJ, Bhagwat AM, Kumar P, Hayat S, Yousri NA, Goswami N, Suhre K, Rafii A, Graumann J, (2016) "Comprehensive transcriptomic and proteomic characterization of human mesenchymal stem cells reveals source specific cellular markers." <i>Sci Rep</i> <b>6</b>:21507; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26857143 26857143]; doi: [https://dx.doi.org/10.1038/srep21507 10.1038/srep21507]; GPMDB: [http://gpmdb.org/data/keyword/26857143 9]. | ||
+ | #Kowal J, Arras G, Colombo M, Jouve M, Morath JP, Primdal-Bengtson B, Dingli F, Loew D, Tkach M, Théry C, (2016) "Proteomic comparison defines novel markers to characterize heterogeneous populations of extracellular vesicle subtypes." <i>Proc Natl Acad Sci U S A</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26858453 26858453]; doi: [https://dx.doi.org/10.1073/pnas.1521230113 10.1073/pnas.1521230113]; GPMDB: [http://gpmdb.org/data/keyword/26858453 56]. | ||
+ | #Locard-Paulet M, Lim L, Veluscek G, McMahon K, Sinclair J, van Weverwijk A, Worboys JD, Yuan Y, Isacke CM, Jørgensen C, (2016) "Phosphoproteomic analysis of interacting tumor and endothelial cells identifies regulatory mechanisms of transendothelial migration." <i>Sci Signal</i> <b>9</b>(414):ra15; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26861043 26861043]; doi: [https://dx.doi.org/10.1126/scisignal.aac5820 10.1126/scisignal.aac5820]; GPMDB: [http://gpmdb.org/data/keyword/26861043 76]. | ||
+ | #Prior KK, Wittig I, Leisegang MS, Groenendyk J, Weissmann N, Michalak M, Jansen-Dürr P, Shah AM, Brandes RP, (2016) "The endoplasmic reticulum chaperone calnexin is a NADPH oxidase Nox4 interacting protein." <i>J Biol Chem</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26861875 26861875]; doi: [https://dx.doi.org/10.1074/jbc.M115.710772 10.1074/jbc.M115.710772]; GPMDB: [http://gpmdb.org/data/keyword/26861875 80]. |
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.