m (Protected "GPMDB Data Sources" ([edit=sysop] (indefinite) [move=sysop] (indefinite))) |
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#Addona TA, Shi X, Keshishian H, Mani DR, Burgess M, Gillette MA, Clauser KR, Shen D, Lewis GD, Farrell LA, Fifer MA, Sabatine MS, Gerszten RE, Carr SA, A pipeline that integrates the discovery and verification of plasma protein biomarkers reveals candidate markers for cardiovascular disease. Nat Biotechnol (2011) 29(7): 635-43; PMID:21685905; doi: 10.1038/nbt.1899. GPMDB files: [http://gpmdb.org/data/keyword/21685905 269]. | #Addona TA, Shi X, Keshishian H, Mani DR, Burgess M, Gillette MA, Clauser KR, Shen D, Lewis GD, Farrell LA, Fifer MA, Sabatine MS, Gerszten RE, Carr SA, A pipeline that integrates the discovery and verification of plasma protein biomarkers reveals candidate markers for cardiovascular disease. Nat Biotechnol (2011) 29(7): 635-43; PMID:21685905; doi: 10.1038/nbt.1899. GPMDB files: [http://gpmdb.org/data/keyword/21685905 269]. | ||
#Gfeller A, Baerenfaller K, Loscos J, Chételat A, Baginsky S, Farmer EE, Jasmonate controls polypeptide patterning in undamaged tissue in wounded Arabidopsis leaves. Plant Physiol (2011) 156(4): 1797-807; PMID:21693672; doi: 10.1104/pp.111.181008. GPMDB files: [http://gpmdb.org/data/keyword/21693672 8]. | #Gfeller A, Baerenfaller K, Loscos J, Chételat A, Baginsky S, Farmer EE, Jasmonate controls polypeptide patterning in undamaged tissue in wounded Arabidopsis leaves. Plant Physiol (2011) 156(4): 1797-807; PMID:21693672; doi: 10.1104/pp.111.181008. GPMDB files: [http://gpmdb.org/data/keyword/21693672 8]. | ||
- | #Karn RC, Laukaitis CM, Positive selection shaped the convergent evolution of independently expanded kallikrein subfamilies expressed in mouse and rat saliva proteomes. PLoS One (2011) 6(6): e20979; PMID:21695125; doi: 10.1371/journal.pone.0020979. GPMDB files: [http://gpmdb.org/data/keyword/21695125 | + | #Karn RC, Laukaitis CM, Positive selection shaped the convergent evolution of independently expanded kallikrein subfamilies expressed in mouse and rat saliva proteomes. PLoS One (2011) 6(6): e20979; PMID:21695125; doi: 10.1371/journal.pone.0020979. GPMDB files: [http://gpmdb.org/data/keyword/21695125 102]. |
#de Oliveira JM, van Passel MW, Schaap PJ, de Graaff LH, Proteomic analysis of the secretory response of Aspergillus niger to D-maltose and D-xylose. PLoS One (2011) 6(6): e20865; PMID:21698107; doi: 10.1371/journal.pone.0020865. GPMDB files: [http://gpmdb.org/data/keyword/21698107 2]. | #de Oliveira JM, van Passel MW, Schaap PJ, de Graaff LH, Proteomic analysis of the secretory response of Aspergillus niger to D-maltose and D-xylose. PLoS One (2011) 6(6): e20865; PMID:21698107; doi: 10.1371/journal.pone.0020865. GPMDB files: [http://gpmdb.org/data/keyword/21698107 2]. | ||
#Kuntumalla S, Zhang Q, Braisted JC, Fleischmann RD, Peterson SN, Donohue-Rolfe A, Tzipori S, Pieper R, In vivo versus in vitro protein abundance analysis of Shigella dysenteriae type 1 reveals changes in the expression of proteins involved in virulence, stress and energy metabolism. BMC Microbiol (2011) 11: 147; PMID:21702961; doi: 10.1186/1471-2180-11-147. GPMDB files: [http://gpmdb.org/data/keyword/21702961 19]. | #Kuntumalla S, Zhang Q, Braisted JC, Fleischmann RD, Peterson SN, Donohue-Rolfe A, Tzipori S, Pieper R, In vivo versus in vitro protein abundance analysis of Shigella dysenteriae type 1 reveals changes in the expression of proteins involved in virulence, stress and energy metabolism. BMC Microbiol (2011) 11: 147; PMID:21702961; doi: 10.1186/1471-2180-11-147. GPMDB files: [http://gpmdb.org/data/keyword/21702961 19]. | ||
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#Lichti CF, Liu H, Shavkunov AS, Mostovenko E, Sulman EP, Ezhilarasan R, Wang Q, Kroes RA, Moskal JC, Fenyö D, Oksuz BA, Conrad CA, Lang FF, Berven FS, Végvári A, Rezeli M, Marko-Varga G, Hober S, Nilsson CL, Integrated chromosome 19 transcriptomic and proteomic data sets derived from glioma cancer stem-cell lines. J Proteome Res (2014) 13(1): 191-9; PMID:24266786; doi: 10.1021/pr400786s. GPMDB files: [http://gpmdb.org/data/keyword/24266786 66]. | #Lichti CF, Liu H, Shavkunov AS, Mostovenko E, Sulman EP, Ezhilarasan R, Wang Q, Kroes RA, Moskal JC, Fenyö D, Oksuz BA, Conrad CA, Lang FF, Berven FS, Végvári A, Rezeli M, Marko-Varga G, Hober S, Nilsson CL, Integrated chromosome 19 transcriptomic and proteomic data sets derived from glioma cancer stem-cell lines. J Proteome Res (2014) 13(1): 191-9; PMID:24266786; doi: 10.1021/pr400786s. GPMDB files: [http://gpmdb.org/data/keyword/24266786 66]. | ||
#Grolimund L, Aeby E, Hamelin R, Armand F, Chiappe D, Moniatte M, Lingner J, A quantitative telomeric chromatin isolation protocol identifies different telomeric states. Nat Commun (2013) 4: 2848; PMID:24270157; doi: 10.1038/ncomms3848. GPMDB files: [http://gpmdb.org/data/keyword/24270157 177]. | #Grolimund L, Aeby E, Hamelin R, Armand F, Chiappe D, Moniatte M, Lingner J, A quantitative telomeric chromatin isolation protocol identifies different telomeric states. Nat Commun (2013) 4: 2848; PMID:24270157; doi: 10.1038/ncomms3848. GPMDB files: [http://gpmdb.org/data/keyword/24270157 177]. | ||
+ | #Martins-de-Souza D, Carvalho PC, Schmitt A, Junqueira M, Nogueira FC, Turck CW, Domont GB, Deciphering the human brain proteome: characterization of the anterior temporal lobe and corpus callosum as part of the Chromosome 15-centric Human Proteome Project. J Proteome Res (2014) 13(1): 147-57; PMID:24274931; doi: 10.1021/pr4009157. GPMDB files: [http://gpmdb.org/data/keyword/24274931 80]. | ||
#Schlage P, Egli FE, Nanni P, Wang LW, Kizhakkedathu JN, Apte SS, auf dem Keller U, Time-resolved analysis of the matrix metalloproteinase 10 substrate degradome. Mol Cell Proteomics (2014) 13(2): 580-93; PMID:24281761; doi: 10.1074/mcp.M113.035139. GPMDB files: [http://gpmdb.org/data/keyword/24281761 34]. | #Schlage P, Egli FE, Nanni P, Wang LW, Kizhakkedathu JN, Apte SS, auf dem Keller U, Time-resolved analysis of the matrix metalloproteinase 10 substrate degradome. Mol Cell Proteomics (2014) 13(2): 580-93; PMID:24281761; doi: 10.1074/mcp.M113.035139. GPMDB files: [http://gpmdb.org/data/keyword/24281761 34]. | ||
#Aquino PF, Lima DB, de Saldanha da Gama Fischer J, Melani RD, Nogueira FC, Chalub SR, Soares ER, Barbosa VC, Domont GB, Carvalho PC, Exploring the proteomic landscape of a gastric cancer biopsy with the shotgun imaging analyzer. J Proteome Res (2014) 13(1): 314-20; PMID:24283986; doi: 10.1021/pr400919k. GPMDB files: [http://gpmdb.org/data/keyword/24283986 152]. | #Aquino PF, Lima DB, de Saldanha da Gama Fischer J, Melani RD, Nogueira FC, Chalub SR, Soares ER, Barbosa VC, Domont GB, Carvalho PC, Exploring the proteomic landscape of a gastric cancer biopsy with the shotgun imaging analyzer. J Proteome Res (2014) 13(1): 314-20; PMID:24283986; doi: 10.1021/pr400919k. GPMDB files: [http://gpmdb.org/data/keyword/24283986 152]. | ||
#Jüschke C, Dohnal I, Pichler P, Harzer H, Swart R, Ammerer G, Mechtler K, Knoblich JA, Transcriptome and proteome quantification of a tumor model provides novel insights into post-transcriptional gene regulation. Genome Biol (2013) 14(11): r133; PMID:24289286; doi: 10.1186/gb-2013-14-11-r133. GPMDB files: [http://gpmdb.org/data/keyword/24289286 203]. | #Jüschke C, Dohnal I, Pichler P, Harzer H, Swart R, Ammerer G, Mechtler K, Knoblich JA, Transcriptome and proteome quantification of a tumor model provides novel insights into post-transcriptional gene regulation. Genome Biol (2013) 14(11): r133; PMID:24289286; doi: 10.1186/gb-2013-14-11-r133. GPMDB files: [http://gpmdb.org/data/keyword/24289286 203]. | ||
#Wang C, Weerapana E, Blewett MM, Cravatt BF, A chemoproteomic platform to quantitatively map targets of lipid-derived electrophiles. Nat Methods (2014) 11(1): 79-85; PMID:24292485; doi: 10.1038/nmeth.2759. GPMDB files: [http://gpmdb.org/data/keyword/24292485 180]. | #Wang C, Weerapana E, Blewett MM, Cravatt BF, A chemoproteomic platform to quantitatively map targets of lipid-derived electrophiles. Nat Methods (2014) 11(1): 79-85; PMID:24292485; doi: 10.1038/nmeth.2759. GPMDB files: [http://gpmdb.org/data/keyword/24292485 180]. | ||
- | #Krönke J, Udeshi ND, Narla A, Grauman P, Hurst SN, McConkey M, Svinkina T, Heckl D, Comer E, Li X, Ciarlo C, Hartman E, Munshi N, Schenone M, Schreiber SL, Carr SA, Ebert BL, Lenalidomide causes selective degradation of IKZF1 and IKZF3 in multiple myeloma cells. Science (2014) 343(6168): 301-5; PMID:24292625; doi: 10.1126/science.1244851. GPMDB files: [http://gpmdb.org/data/keyword/24292625 | + | #Krönke J, Udeshi ND, Narla A, Grauman P, Hurst SN, McConkey M, Svinkina T, Heckl D, Comer E, Li X, Ciarlo C, Hartman E, Munshi N, Schenone M, Schreiber SL, Carr SA, Ebert BL, Lenalidomide causes selective degradation of IKZF1 and IKZF3 in multiple myeloma cells. Science (2014) 343(6168): 301-5; PMID:24292625; doi: 10.1126/science.1244851. GPMDB files: [http://gpmdb.org/data/keyword/24292625 90]. |
#Poulsen ET, Runager K, Risør MW, Dyrlund TF, Scavenius C, Karring H, Praetorius J, Vorum H, Otzen DE, Klintworth GK, Enghild JJ, Comparison of two phenotypically distinct lattice corneal dystrophies caused by mutations in the transforming growth factor beta induced (TGFBI) gene. Proteomics Clin Appl (2014) 8(3-4): 168-77; PMID:24302499; doi: 10.1002/prca.201300058. GPMDB files: [http://gpmdb.org/data/keyword/24302499 10]. | #Poulsen ET, Runager K, Risør MW, Dyrlund TF, Scavenius C, Karring H, Praetorius J, Vorum H, Otzen DE, Klintworth GK, Enghild JJ, Comparison of two phenotypically distinct lattice corneal dystrophies caused by mutations in the transforming growth factor beta induced (TGFBI) gene. Proteomics Clin Appl (2014) 8(3-4): 168-77; PMID:24302499; doi: 10.1002/prca.201300058. GPMDB files: [http://gpmdb.org/data/keyword/24302499 10]. | ||
#Macleod AK, Zang T, Riches Z, Henderson CJ, Wolf CR, Huang JT, A targeted in vivo SILAC approach for quantification of drug metabolism enzymes: regulation by the constitutive androstane receptor. J Proteome Res (2014) 13(2): 866-74; PMID:24303842; doi: 10.1021/pr400897t. GPMDB files: [http://gpmdb.org/data/keyword/24303842 44]. | #Macleod AK, Zang T, Riches Z, Henderson CJ, Wolf CR, Huang JT, A targeted in vivo SILAC approach for quantification of drug metabolism enzymes: regulation by the constitutive androstane receptor. J Proteome Res (2014) 13(2): 866-74; PMID:24303842; doi: 10.1021/pr400897t. GPMDB files: [http://gpmdb.org/data/keyword/24303842 44]. | ||
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#Tong J, Taylor P, Moran MF, Proteomic analysis of the epidermal growth factor receptor (EGFR) interactome and post-translational modifications associated with receptor endocytosis in response to EGF and stress. Mol Cell Proteomics (2014) 13(7): 1644-58; PMID:24797263; doi: 10.1074/mcp.M114.038596. GPMDB files: [http://gpmdb.org/data/keyword/24797263 69]. | #Tong J, Taylor P, Moran MF, Proteomic analysis of the epidermal growth factor receptor (EGFR) interactome and post-translational modifications associated with receptor endocytosis in response to EGF and stress. Mol Cell Proteomics (2014) 13(7): 1644-58; PMID:24797263; doi: 10.1074/mcp.M114.038596. GPMDB files: [http://gpmdb.org/data/keyword/24797263 69]. | ||
#Giansanti P, Preisinger C, Huber KV, Gridling M, Superti-Furga G, Bennett KL, Heck AJ, Evaluating the promiscuous nature of tyrosine kinase inhibitors assessed in A431 epidermoid carcinoma cells by both chemical- and phosphoproteomics. ACS Chem Biol (2014) 9(7): 1490-8; PMID:24804581; doi: 10.1021/cb500116c. GPMDB files: [http://gpmdb.org/data/keyword/24804581 71]. | #Giansanti P, Preisinger C, Huber KV, Gridling M, Superti-Furga G, Bennett KL, Heck AJ, Evaluating the promiscuous nature of tyrosine kinase inhibitors assessed in A431 epidermoid carcinoma cells by both chemical- and phosphoproteomics. ACS Chem Biol (2014) 9(7): 1490-8; PMID:24804581; doi: 10.1021/cb500116c. GPMDB files: [http://gpmdb.org/data/keyword/24804581 71]. | ||
+ | #Rowshanravan B, Woodcock SA, Botella JA, Kiermayer C, Schneuwly S, Hughes DA, RasGAP mediates neuronal survival in Drosophila through direct regulation of Rab5-dependent endocytosis. J Cell Sci (2014) 127(Pt 13): 2849-61; PMID:24816559; doi: 10.1242/jcs.139329. GPMDB files: [http://gpmdb.org/data/keyword/24816559 42]. | ||
#Bracht T, Hagemann S, Loscha M, Megger DA, Padden J, Eisenacher M, Kuhlmann K, Meyer HE, Baba HA, Sitek B, Proteome analysis of a hepatocyte-specific BIRC5 (survivin)-knockout mouse model during liver regeneration. J Proteome Res (2014) 13(6): 2771-82; PMID:24818710; doi: 10.1021/pr401188r. GPMDB files: [http://gpmdb.org/data/keyword/24818710 68]. | #Bracht T, Hagemann S, Loscha M, Megger DA, Padden J, Eisenacher M, Kuhlmann K, Meyer HE, Baba HA, Sitek B, Proteome analysis of a hepatocyte-specific BIRC5 (survivin)-knockout mouse model during liver regeneration. J Proteome Res (2014) 13(6): 2771-82; PMID:24818710; doi: 10.1021/pr401188r. GPMDB files: [http://gpmdb.org/data/keyword/24818710 68]. | ||
#Siljamäki P, Varmanen P, Kankainen M, Sukura A, Savijoki K, Nyman TA, Comparative exoprotein profiling of different Staphylococcus epidermidis strains reveals potential link between nonclassical protein export and virulence. J Proteome Res (2014) 13(7): 3249-61; PMID:24840314; doi: 10.1021/pr500075j. GPMDB files: [http://gpmdb.org/data/keyword/24840314 94]. | #Siljamäki P, Varmanen P, Kankainen M, Sukura A, Savijoki K, Nyman TA, Comparative exoprotein profiling of different Staphylococcus epidermidis strains reveals potential link between nonclassical protein export and virulence. J Proteome Res (2014) 13(7): 3249-61; PMID:24840314; doi: 10.1021/pr500075j. GPMDB files: [http://gpmdb.org/data/keyword/24840314 94]. | ||
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#Broncel M, Serwa RA, Ciepla P, Krause E, Dallman MJ, Magee AI, Tate EW, Multifunctional reagents for quantitative proteome-wide analysis of protein modification in human cells and dynamic profiling of protein lipidation during vertebrate development. Angew Chem Int Ed Engl (2015) 54(20): 5948-51; PMID:25807930; doi: 10.1002/anie.201500342. GPMDB files: [http://gpmdb.org/data/keyword/25807930 1]. | #Broncel M, Serwa RA, Ciepla P, Krause E, Dallman MJ, Magee AI, Tate EW, Multifunctional reagents for quantitative proteome-wide analysis of protein modification in human cells and dynamic profiling of protein lipidation during vertebrate development. Angew Chem Int Ed Engl (2015) 54(20): 5948-51; PMID:25807930; doi: 10.1002/anie.201500342. GPMDB files: [http://gpmdb.org/data/keyword/25807930 1]. | ||
#Khan MN, Sakata K, Komatsu S, Proteomic analysis of soybean hypocotyl during recovery after flooding stress. J Proteomics (2015) 121: 15-27; PMID:25818724; doi: 10.1016/j.jprot.2015.03.020. GPMDB files: [http://gpmdb.org/data/keyword/25818724 21]. | #Khan MN, Sakata K, Komatsu S, Proteomic analysis of soybean hypocotyl during recovery after flooding stress. J Proteomics (2015) 121: 15-27; PMID:25818724; doi: 10.1016/j.jprot.2015.03.020. GPMDB files: [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, Growth Cone Localization of the mRNA Encoding the Chromatin Regulator HMGN5 Modulates Neurite Outgrowth. Mol Cell Biol (2015) 35(11): 2035-50; PMID:25825524; doi: 10.1128/MCB.00133-15. GPMDB files: [http://gpmdb.org/data/keyword/25825524 72]. | ||
#Alpert AJ, Hudecz O, Mechtler K, Anion-exchange chromatography of phosphopeptides: weak anion exchange versus strong anion exchange and anion-exchange chromatography versus electrostatic repulsion-hydrophilic interaction chromatography. Anal Chem (2015) 87(9): 4704-11; PMID:25827581; doi: 10.1021/ac504420c. GPMDB files: [http://gpmdb.org/data/keyword/25827581 42]. | #Alpert AJ, Hudecz O, Mechtler K, Anion-exchange chromatography of phosphopeptides: weak anion exchange versus strong anion exchange and anion-exchange chromatography versus electrostatic repulsion-hydrophilic interaction chromatography. Anal Chem (2015) 87(9): 4704-11; PMID:25827581; doi: 10.1021/ac504420c. GPMDB files: [http://gpmdb.org/data/keyword/25827581 42]. | ||
#Ao J, Mu Y, Xiang LX, Fan D, Feng M, Zhang S, Shi Q, Zhu LY, Li T, Ding Y, Nie L, Li Q, Dong WR, Jiang L, Sun B, Zhang X, Li M, Zhang HQ, Xie S, Zhu Y, Jiang X, Wang X, Mu P, Chen W, Yue Z, Wang Z, Wang J, Shao JZ, Chen X, Genome sequencing of the perciform fish Larimichthys crocea provides insights into molecular and genetic mechanisms of stress adaptation. PLoS Genet (2015) 11(4): e1005118; PMID:25835551; doi: 10.1371/journal.pgen.1005118. GPMDB files: [http://gpmdb.org/data/keyword/25835551 20]. | #Ao J, Mu Y, Xiang LX, Fan D, Feng M, Zhang S, Shi Q, Zhu LY, Li T, Ding Y, Nie L, Li Q, Dong WR, Jiang L, Sun B, Zhang X, Li M, Zhang HQ, Xie S, Zhu Y, Jiang X, Wang X, Mu P, Chen W, Yue Z, Wang Z, Wang J, Shao JZ, Chen X, Genome sequencing of the perciform fish Larimichthys crocea provides insights into molecular and genetic mechanisms of stress adaptation. PLoS Genet (2015) 11(4): e1005118; PMID:25835551; doi: 10.1371/journal.pgen.1005118. GPMDB files: [http://gpmdb.org/data/keyword/25835551 20]. | ||
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#Gorshkov V, Verano-Braga T, Kjeldsen F, SuperQuant: A Data Processing Approach to Increase Quantitative Proteome Coverage. Anal Chem (2015) 87(12): 6319-27; PMID:25978296; doi: 10.1021/acs.analchem.5b01166. GPMDB files: [http://gpmdb.org/data/keyword/25978296 12]. | #Gorshkov V, Verano-Braga T, Kjeldsen F, SuperQuant: A Data Processing Approach to Increase Quantitative Proteome Coverage. Anal Chem (2015) 87(12): 6319-27; PMID:25978296; doi: 10.1021/acs.analchem.5b01166. GPMDB files: [http://gpmdb.org/data/keyword/25978296 12]. | ||
#Dinets A, Pernemalm M, Kjellin H, Sviatoha V, Sofiadis A, Juhlin CC, Zedenius J, Larsson C, Lehtiö J, Höög A, Differential protein expression profiles of cyst fluid from papillary thyroid carcinoma and benign thyroid lesions. PLoS One (2015) 10(5): e0126472; PMID:25978681; doi: 10.1371/journal.pone.0126472. GPMDB files: [http://gpmdb.org/data/keyword/25978681 2]. | #Dinets A, Pernemalm M, Kjellin H, Sviatoha V, Sofiadis A, Juhlin CC, Zedenius J, Larsson C, Lehtiö J, Höög A, Differential protein expression profiles of cyst fluid from papillary thyroid carcinoma and benign thyroid lesions. PLoS One (2015) 10(5): e0126472; PMID:25978681; doi: 10.1371/journal.pone.0126472. GPMDB files: [http://gpmdb.org/data/keyword/25978681 2]. | ||
+ | #Campos A, Díaz R, Martínez-Bartolomé S, Sierra J, Gallardo O, Sabidó E, López-Lucendo M, Ignacio Casal J, Pasquarello C, Scherl A, Chiva C, Borras E, Odena A, Elortza F, Azkargorta M, Ibarrola N, Canals F, Albar JP, Oliveira E, Multicenter experiment for quality control of peptide-centric LC-MS/MS analysis - A longitudinal performance assessment with nLC coupled to orbitrap MS analyzers. J Proteomics (2015) 127(Pt B): 264-74; PMID:25982386; doi: 10.1016/j.jprot.2015.05.012. GPMDB files: [http://gpmdb.org/data/keyword/25982386 112]. | ||
#Graessel A, Hauck SM, von Toerne C, Kloppmann E, Goldberg T, Koppensteiner H, Schindler M, Knapp B, Krause L, Dietz K, Schmidt-Weber CB, Suttner K, A Combined Omics Approach to Generate the Surface Atlas of Human Naive CD4+ T Cells during Early T-Cell Receptor Activation. Mol Cell Proteomics (2015) 14(8): 2085-102; PMID:25991687; doi: 10.1074/mcp.M114.045690. GPMDB files: [http://gpmdb.org/data/keyword/25991687 48]. | #Graessel A, Hauck SM, von Toerne C, Kloppmann E, Goldberg T, Koppensteiner H, Schindler M, Knapp B, Krause L, Dietz K, Schmidt-Weber CB, Suttner K, A Combined Omics Approach to Generate the Surface Atlas of Human Naive CD4+ T Cells during Early T-Cell Receptor Activation. Mol Cell Proteomics (2015) 14(8): 2085-102; PMID:25991687; doi: 10.1074/mcp.M114.045690. GPMDB files: [http://gpmdb.org/data/keyword/25991687 48]. | ||
#Bennike TB, Carlsen TG, Ellingsen T, Bonderup OK, Glerup H, Bøgsted M, Christiansen G, Birkelund S, Stensballe A, Andersen V, Neutrophil Extracellular Traps in Ulcerative Colitis: A Proteome Analysis of Intestinal Biopsies. Inflamm Bowel Dis (2015) 21(9): 2052-67; PMID:25993694; doi: 10.1097/MIB.0000000000000460. GPMDB files: [http://gpmdb.org/data/keyword/25993694 60]. | #Bennike TB, Carlsen TG, Ellingsen T, Bonderup OK, Glerup H, Bøgsted M, Christiansen G, Birkelund S, Stensballe A, Andersen V, Neutrophil Extracellular Traps in Ulcerative Colitis: A Proteome Analysis of Intestinal Biopsies. Inflamm Bowel Dis (2015) 21(9): 2052-67; PMID:25993694; doi: 10.1097/MIB.0000000000000460. GPMDB files: [http://gpmdb.org/data/keyword/25993694 60]. | ||
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#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, Influenza Polymerase Can Adopt an Alternative Configuration Involving a Radical Repacking of PB2 Domains. Mol Cell (2016) 61(1): 125-37; PMID:26711008; doi: 10.1016/j.molcel.2015.11.016. GPMDB files: [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, Influenza Polymerase Can Adopt an Alternative Configuration Involving a Radical Repacking of PB2 Domains. Mol Cell (2016) 61(1): 125-37; PMID:26711008; doi: 10.1016/j.molcel.2015.11.016. GPMDB files: [http://gpmdb.org/data/keyword/26711008 44]. | ||
#Li Q, Chang Z, Oliveira G, Xiong M, Smith LM, Frey BL, Welham NV, Protein turnover during in vitro tissue engineering. Biomaterials (2015) 81: 104-113; PMID:26724458; doi: 10.1016/j.biomaterials.2015.12.004. GPMDB files: [http://gpmdb.org/data/keyword/26724458 66]. | #Li Q, Chang Z, Oliveira G, Xiong M, Smith LM, Frey BL, Welham NV, Protein turnover during in vitro tissue engineering. Biomaterials (2015) 81: 104-113; PMID:26724458; doi: 10.1016/j.biomaterials.2015.12.004. GPMDB files: [http://gpmdb.org/data/keyword/26724458 66]. | ||
- | #Tyanova S, Albrechtsen R, Kronqvist P, Cox J, Mann M, Geiger T, Proteomic maps of breast cancer subtypes. Nat Commun (2016) 7: 10259; PMID:26725330; doi: 10.1038/ncomms10259. GPMDB files: [http://gpmdb.org/data/keyword/26725330 | + | #Tyanova S, Albrechtsen R, Kronqvist P, Cox J, Mann M, Geiger T, Proteomic maps of breast cancer subtypes. Nat Commun (2016) 7: 10259; PMID:26725330; doi: 10.1038/ncomms10259. GPMDB files: [http://gpmdb.org/data/keyword/26725330 198]. |
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 January 13, 2016.