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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 January | + | 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 January 8, 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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#de Graaf EL, Kaplon J, Zhou H, Heck AJ, Peeper DS, Altelaar AF, (2014) "Phosphoproteome dynamics in onset and maintenance of oncogene-induced senescence." <i>Mol Cell Proteomics</i> <b>13</b>(8):2089–100; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24961811 24961811]; doi: [https://dx.doi.org/10.1074/mcp.M113.035436 10.1074/mcp.M113.035436]; GPMDB: [http://gpmdb.org/data/keyword/24961811 223]. | #de Graaf EL, Kaplon J, Zhou H, Heck AJ, Peeper DS, Altelaar AF, (2014) "Phosphoproteome dynamics in onset and maintenance of oncogene-induced senescence." <i>Mol Cell Proteomics</i> <b>13</b>(8):2089–100; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24961811 24961811]; doi: [https://dx.doi.org/10.1074/mcp.M113.035436 10.1074/mcp.M113.035436]; GPMDB: [http://gpmdb.org/data/keyword/24961811 223]. | ||
#Iesmantavicius V, Weinert BT, Choudhary C, (2014) "Convergence of ubiquitylation and phosphorylation signaling in rapamycin-treated yeast cells." <i>Mol Cell Proteomics</i> <b>13</b>(8):1979–92; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24961812 24961812]; doi: [https://dx.doi.org/10.1074/mcp.O113.035683 10.1074/mcp.O113.035683]; GPMDB: [http://gpmdb.org/data/keyword/24961812 71]. | #Iesmantavicius V, Weinert BT, Choudhary C, (2014) "Convergence of ubiquitylation and phosphorylation signaling in rapamycin-treated yeast cells." <i>Mol Cell Proteomics</i> <b>13</b>(8):1979–92; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24961812 24961812]; doi: [https://dx.doi.org/10.1074/mcp.O113.035683 10.1074/mcp.O113.035683]; GPMDB: [http://gpmdb.org/data/keyword/24961812 71]. | ||
+ | #Jefferson M, Donaszi-Ivanov A, Pollen S, Dalmay T, Saalbach G, Powell PP, (2014) "Host factors that interact with the pestivirus N-terminal protease, Npro, are components of the ribonucleoprotein complex." <i>J Virol</i> <b>88</b>(18):10340–53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24965446 24965446]; doi: [https://dx.doi.org/10.1128/JVI.00984-14 10.1128/JVI.00984-14]; GPMDB: [http://gpmdb.org/data/keyword/24965446 30]. | ||
#Milbradt J, Kraut A, Hutterer C, Sonntag E, Schmeiser C, Ferro M, Wagner S, Lenac T, Claus C, Pinkert S, Hamilton ST, Rawlinson WD, Sticht H, Couté Y, Marschall M, (2014) "Proteomic analysis of the multimeric nuclear egress complex of human cytomegalovirus." <i>Mol Cell Proteomics</i> <b>13</b>(8):2132–46; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24969177 24969177]; doi: [https://dx.doi.org/10.1074/mcp.M113.035782 10.1074/mcp.M113.035782]; GPMDB: [http://gpmdb.org/data/keyword/24969177 24]. | #Milbradt J, Kraut A, Hutterer C, Sonntag E, Schmeiser C, Ferro M, Wagner S, Lenac T, Claus C, Pinkert S, Hamilton ST, Rawlinson WD, Sticht H, Couté Y, Marschall M, (2014) "Proteomic analysis of the multimeric nuclear egress complex of human cytomegalovirus." <i>Mol Cell Proteomics</i> <b>13</b>(8):2132–46; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24969177 24969177]; doi: [https://dx.doi.org/10.1074/mcp.M113.035782 10.1074/mcp.M113.035782]; GPMDB: [http://gpmdb.org/data/keyword/24969177 24]. | ||
#Fischer MG, Kelly I, Foster LJ, Suttle CA, (2014) "The virion of Cafeteria roenbergensis virus (CroV) contains a complex suite of proteins for transcription and DNA repair." <i>Virology</i> <b>466-467</b>:82–94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24973308 24973308]; doi: [https://dx.doi.org/10.1016/j.virol.2014.05.029 10.1016/j.virol.2014.05.029]; GPMDB: [http://gpmdb.org/data/keyword/24973308 10]. | #Fischer MG, Kelly I, Foster LJ, Suttle CA, (2014) "The virion of Cafeteria roenbergensis virus (CroV) contains a complex suite of proteins for transcription and DNA repair." <i>Virology</i> <b>466-467</b>:82–94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24973308 24973308]; doi: [https://dx.doi.org/10.1016/j.virol.2014.05.029 10.1016/j.virol.2014.05.029]; GPMDB: [http://gpmdb.org/data/keyword/24973308 10]. | ||
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#Weinert BT, Moustafa T, Iesmantavicius V, Zechner R, Choudhary C, (2015) "Analysis of acetylation stoichiometry suggests that SIRT3 repairs nonenzymatic acetylation lesions." <i>EMBO J</i> <b>34</b>(21):2620–32; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26358839 26358839]; doi: [https://dx.doi.org/10.15252/embj.201591271 10.15252/embj.201591271]; GPMDB: [http://gpmdb.org/data/keyword/26358839 142]. | #Weinert BT, Moustafa T, Iesmantavicius V, Zechner R, Choudhary C, (2015) "Analysis of acetylation stoichiometry suggests that SIRT3 repairs nonenzymatic acetylation lesions." <i>EMBO J</i> <b>34</b>(21):2620–32; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26358839 26358839]; doi: [https://dx.doi.org/10.15252/embj.201591271 10.15252/embj.201591271]; GPMDB: [http://gpmdb.org/data/keyword/26358839 142]. | ||
#Grundner-Culemann K, Dybowski JN, Klammer M, Tebbe A, Schaab C, Daub H, (2016) "Comparative proteome analysis across non-small cell lung cancer cell lines." <i>J Proteomics</i> <b>130</b>:1–10; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26361996 26361996]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.09.003 10.1016/j.jprot.2015.09.003]; GPMDB: [http://gpmdb.org/data/keyword/26361996 23]. | #Grundner-Culemann K, Dybowski JN, Klammer M, Tebbe A, Schaab C, Daub H, (2016) "Comparative proteome analysis across non-small cell lung cancer cell lines." <i>J Proteomics</i> <b>130</b>:1–10; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26361996 26361996]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.09.003 10.1016/j.jprot.2015.09.003]; GPMDB: [http://gpmdb.org/data/keyword/26361996 23]. | ||
+ | #Mackowiak SD, Zauber H, Bielow C, Thiel D, Kutz K, Calviello L, Mastrobuoni G, Rajewsky N, Kempa S, Selbach M, Obermayer B, (2015) "Extensive identification and analysis of conserved small ORFs in animals." <i>Genome Biol</i> <b>16</b>:179; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26364619 26364619]; doi: [https://dx.doi.org/10.1186/s13059-015-0742-x 10.1186/s13059-015-0742-x]; GPMDB: [http://gpmdb.org/data/keyword/26364619 19]. | ||
#Lin MH, Sugiyama N, Ishihama Y, (2015) "Systematic profiling of the bacterial phosphoproteome reveals bacterium-specific features of phosphorylation." <i>Sci Signal</i> <b>8</b>(394):rs10; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26373674 26373674]; doi: [https://dx.doi.org/10.1126/scisignal.aaa3117 10.1126/scisignal.aaa3117]; GPMDB: [http://gpmdb.org/data/keyword/26373674 73]. | #Lin MH, Sugiyama N, Ishihama Y, (2015) "Systematic profiling of the bacterial phosphoproteome reveals bacterium-specific features of phosphorylation." <i>Sci Signal</i> <b>8</b>(394):rs10; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26373674 26373674]; doi: [https://dx.doi.org/10.1126/scisignal.aaa3117 10.1126/scisignal.aaa3117]; GPMDB: [http://gpmdb.org/data/keyword/26373674 73]. | ||
#Park AJ, Murphy K, Surette MD, Bandoro C, Krieger JR, Taylor P, Khursigara CM, (2015) "Tracking the Dynamic Relationship between Cellular Systems and Extracellular Subproteomes in Pseudomonas aeruginosa Biofilms." <i>J Proteome Res</i> <b>14</b>(11):4524–37; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26378716 26378716]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00262 10.1021/acs.jproteome.5b00262]; GPMDB: [http://gpmdb.org/data/keyword/26378716 34]. | #Park AJ, Murphy K, Surette MD, Bandoro C, Krieger JR, Taylor P, Khursigara CM, (2015) "Tracking the Dynamic Relationship between Cellular Systems and Extracellular Subproteomes in Pseudomonas aeruginosa Biofilms." <i>J Proteome Res</i> <b>14</b>(11):4524–37; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26378716 26378716]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00262 10.1021/acs.jproteome.5b00262]; GPMDB: [http://gpmdb.org/data/keyword/26378716 34]. | ||
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#Sialana FJ, Gulyassy P, Májek P, Sjöstedt E, Kis V, Müller AC, Rudashevskaya EL, Mulder J, Bennett KL, Lubec G, (2016) "Mass spectrometric analysis of synaptosomal membrane preparations for the determination of brain receptors, transporters and channels." <i>Proteomics</i> <b>16</b>(22):2911–2920; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27759936 27759936]; doi: [https://dx.doi.org/10.1002/pmic.201600234 10.1002/pmic.201600234]; GPMDB: [http://gpmdb.org/data/keyword/27759936 86]. | #Sialana FJ, Gulyassy P, Májek P, Sjöstedt E, Kis V, Müller AC, Rudashevskaya EL, Mulder J, Bennett KL, Lubec G, (2016) "Mass spectrometric analysis of synaptosomal membrane preparations for the determination of brain receptors, transporters and channels." <i>Proteomics</i> <b>16</b>(22):2911–2920; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27759936 27759936]; doi: [https://dx.doi.org/10.1002/pmic.201600234 10.1002/pmic.201600234]; GPMDB: [http://gpmdb.org/data/keyword/27759936 86]. | ||
#Sarvaiya HA, Lazar IM, (2016) "Insulin stimulated MCF7 breast cancer cells: Proteome dataset." <i>Data Brief</i> <b>9</b>:579–584; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27761513 27761513]; doi: [https://dx.doi.org/10.1016/j.dib.2016.09.025 10.1016/j.dib.2016.09.025]; GPMDB: [http://gpmdb.org/data/keyword/27761513 1]. | #Sarvaiya HA, Lazar IM, (2016) "Insulin stimulated MCF7 breast cancer cells: Proteome dataset." <i>Data Brief</i> <b>9</b>:579–584; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27761513 27761513]; doi: [https://dx.doi.org/10.1016/j.dib.2016.09.025 10.1016/j.dib.2016.09.025]; GPMDB: [http://gpmdb.org/data/keyword/27761513 1]. | ||
+ | #Richter E, Harms M, Ventz K, Nölker R, Fraunholz MJ, Mostertz J, Hochgräfe F, (2016) "Quantitative Proteomics Reveals the Dynamics of Protein Phosphorylation in Human Bronchial Epithelial Cells during Internalization, Phagosomal Escape, and Intracellular Replication of Staphylococcus aureus." <i>J Proteome Res</i> <b>15</b>(12):4369–4386; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27762562 27762562]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00421 10.1021/acs.jproteome.6b00421]; GPMDB: [http://gpmdb.org/data/keyword/27762562 46]. | ||
#Assoni A, Coatti G, Valadares MC, Beccari M, Gomes J, Pelatti M, Mitne-Neto M, Carvalho VM, Zatz M, (2016) "Different Donors Mesenchymal Stromal Cells Secretomes Reveal Heterogeneous Profile of Relevance for Therapeutic Use." <i>Stem Cells Dev</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27762666 27762666]; doi: [https://dx.doi.org/10.1089/scd.2016.0218 10.1089/scd.2016.0218]; GPMDB: [http://gpmdb.org/data/keyword/27762666 48]. | #Assoni A, Coatti G, Valadares MC, Beccari M, Gomes J, Pelatti M, Mitne-Neto M, Carvalho VM, Zatz M, (2016) "Different Donors Mesenchymal Stromal Cells Secretomes Reveal Heterogeneous Profile of Relevance for Therapeutic Use." <i>Stem Cells Dev</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27762666 27762666]; doi: [https://dx.doi.org/10.1089/scd.2016.0218 10.1089/scd.2016.0218]; GPMDB: [http://gpmdb.org/data/keyword/27762666 48]. | ||
#Peng J, Cao J, Ng FM, Hill J, (2016) "Pseudomonas aeruginosa develops Ciprofloxacin resistance from low to high level with distinctive proteome changes." <i>J Proteomics</i> <b>152</b>:75–87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27771372 27771372]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.10.005 10.1016/j.jprot.2016.10.005]; GPMDB: [http://gpmdb.org/data/keyword/27771372 25]. | #Peng J, Cao J, Ng FM, Hill J, (2016) "Pseudomonas aeruginosa develops Ciprofloxacin resistance from low to high level with distinctive proteome changes." <i>J Proteomics</i> <b>152</b>:75–87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27771372 27771372]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.10.005 10.1016/j.jprot.2016.10.005]; GPMDB: [http://gpmdb.org/data/keyword/27771372 25]. | ||
#Rafiee MR, Girardot C, Sigismondo G, Krijgsveld J, (2016) "Expanding the Circuitry of Pluripotency by Selective Isolation of Chromatin-Associated Proteins." <i>Mol Cell</i> <b>64</b>(3):624–635; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27773674 27773674]; doi: [https://dx.doi.org/10.1016/j.molcel.2016.09.019 10.1016/j.molcel.2016.09.019]; GPMDB: [http://gpmdb.org/data/keyword/27773674 13]. | #Rafiee MR, Girardot C, Sigismondo G, Krijgsveld J, (2016) "Expanding the Circuitry of Pluripotency by Selective Isolation of Chromatin-Associated Proteins." <i>Mol Cell</i> <b>64</b>(3):624–635; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27773674 27773674]; doi: [https://dx.doi.org/10.1016/j.molcel.2016.09.019 10.1016/j.molcel.2016.09.019]; GPMDB: [http://gpmdb.org/data/keyword/27773674 13]. | ||
#Duncan O, Trösch J, Fenske R, Taylor NL, Millar AH, (2016) "Mapping the Triticum aestivum proteome." <i>Plant J</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27775198 27775198]; doi: [https://dx.doi.org/10.1111/tpj.13402 10.1111/tpj.13402]; GPMDB: [http://gpmdb.org/data/keyword/27775198 28]. | #Duncan O, Trösch J, Fenske R, Taylor NL, Millar AH, (2016) "Mapping the Triticum aestivum proteome." <i>Plant J</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27775198 27775198]; doi: [https://dx.doi.org/10.1111/tpj.13402 10.1111/tpj.13402]; GPMDB: [http://gpmdb.org/data/keyword/27775198 28]. | ||
- | #Maleki S, Kjellqvist S, Paloschi V, Magné J, Branca RM, Du L, Hultenby K, Petrini J, Fuxe J, MIBAVA Leducq Consortium., Lehtiö J, Franco-Cereceda A, Eriksson P, Björck HM, (2016) "Mesenchymal state of intimal cells may explain higher propensity to ascending aortic aneurysm in bicuspid aortic valves." <i>Sci Rep</i> <b>6</b>:35712; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27779199 27779199]; doi: [https://dx.doi.org/10.1038/srep35712 10.1038/srep35712]; GPMDB: [http://gpmdb.org/data/keyword/27779199 | + | #Maleki S, Kjellqvist S, Paloschi V, Magné J, Branca RM, Du L, Hultenby K, Petrini J, Fuxe J, MIBAVA Leducq Consortium., Lehtiö J, Franco-Cereceda A, Eriksson P, Björck HM, (2016) "Mesenchymal state of intimal cells may explain higher propensity to ascending aortic aneurysm in bicuspid aortic valves." <i>Sci Rep</i> <b>6</b>:35712; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27779199 27779199]; doi: [https://dx.doi.org/10.1038/srep35712 10.1038/srep35712]; GPMDB: [http://gpmdb.org/data/keyword/27779199 6]. |
+ | #Ward JA, McLellan L, Stockley M, Gibson KR, Whitlock GA, Knights C, Harrigan JA, Jacq X, Tate EW, (2016) "Quantitative Chemical Proteomic Profiling of Ubiquitin Specific Proteases in Intact Cancer Cells." <i>ACS Chem Biol</i> <b>11</b>(12):3268–3272; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27779380 27779380]; doi: [https://dx.doi.org/10.1021/acschembio.6b00766 10.1021/acschembio.6b00766]; GPMDB: [http://gpmdb.org/data/keyword/27779380 18]. | ||
#Cunsolo V, Fasoli E, Di Francesco A, Saletti R, Muccilli V, Gallina S, Righetti PG, Foti S, (2016) "Polyphemus, Odysseus and the ovine milk proteome." <i>J Proteomics</i> <b>152</b>:58–74; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27784645 27784645]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.10.007 10.1016/j.jprot.2016.10.007]; GPMDB: [http://gpmdb.org/data/keyword/27784645 40]. | #Cunsolo V, Fasoli E, Di Francesco A, Saletti R, Muccilli V, Gallina S, Righetti PG, Foti S, (2016) "Polyphemus, Odysseus and the ovine milk proteome." <i>J Proteomics</i> <b>152</b>:58–74; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27784645 27784645]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.10.007 10.1016/j.jprot.2016.10.007]; GPMDB: [http://gpmdb.org/data/keyword/27784645 40]. | ||
#Weisser H, Wright JC, Mudge JM, Gutenbrunner P, Choudhary JS, (2016) "Flexible Data Analysis Pipeline for High-Confidence Proteogenomics." <i>J Proteome Res</i> <b>15</b>(12):4686–4695; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27786492 27786492]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00765 10.1021/acs.jproteome.6b00765]; GPMDB: [http://gpmdb.org/data/keyword/27786492 35]. | #Weisser H, Wright JC, Mudge JM, Gutenbrunner P, Choudhary JS, (2016) "Flexible Data Analysis Pipeline for High-Confidence Proteogenomics." <i>J Proteome Res</i> <b>15</b>(12):4686–4695; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27786492 27786492]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00765 10.1021/acs.jproteome.6b00765]; GPMDB: [http://gpmdb.org/data/keyword/27786492 35]. | ||
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#Lundquist PK, Mantegazza O, Stefanski A, Stühler K, Weber AP, (2016) "Surveying the Oligomeric State of Arabidopsis thaliana Chloroplasts." <i>Mol Plant</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27794502 27794502]; doi: [https://dx.doi.org/10.1016/j.molp.2016.10.011 10.1016/j.molp.2016.10.011]; GPMDB: [http://gpmdb.org/data/keyword/27794502 42]. | #Lundquist PK, Mantegazza O, Stefanski A, Stühler K, Weber AP, (2016) "Surveying the Oligomeric State of Arabidopsis thaliana Chloroplasts." <i>Mol Plant</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27794502 27794502]; doi: [https://dx.doi.org/10.1016/j.molp.2016.10.011 10.1016/j.molp.2016.10.011]; GPMDB: [http://gpmdb.org/data/keyword/27794502 42]. | ||
#Fournier M, Orpinell M, Grauffel C, Scheer E, Garnier JM, Ye T, Chavant V, Joint M, Esashi F, Dejaegere A, Gönczy P, Tora L, (2016) "KAT2A/KAT2B-targeted acetylome reveals a role for PLK4 acetylation in preventing centrosome amplification." <i>Nat Commun</i> <b>7</b>:13227; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27796307 27796307]; doi: [https://dx.doi.org/10.1038/ncomms13227 10.1038/ncomms13227]; GPMDB: [http://gpmdb.org/data/keyword/27796307 114]. | #Fournier M, Orpinell M, Grauffel C, Scheer E, Garnier JM, Ye T, Chavant V, Joint M, Esashi F, Dejaegere A, Gönczy P, Tora L, (2016) "KAT2A/KAT2B-targeted acetylome reveals a role for PLK4 acetylation in preventing centrosome amplification." <i>Nat Commun</i> <b>7</b>:13227; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27796307 27796307]; doi: [https://dx.doi.org/10.1038/ncomms13227 10.1038/ncomms13227]; GPMDB: [http://gpmdb.org/data/keyword/27796307 114]. | ||
+ | #Karunakaran KP, Yu H, Jiang X, Chan Q, Goldberg MF, Jenkins MK, Foster LJ, Brunham RC, (2017) "Identification of MHC-Bound Peptides from Dendritic Cells Infected with Salmonella enterica Strain SL1344: Implications for a Nontyphoidal Salmonella Vaccine." <i>J Proteome Res</i> <b>16</b>(1):298–306; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27802388 27802388]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00926 10.1021/acs.jproteome.6b00926]; GPMDB: [http://gpmdb.org/data/keyword/27802388 3]. | ||
+ | #Roberts JH, Liu F, Karnuta JM, Fitzgerald MC, (2016) "Discovery of Age-Related Protein Folding Stability Differences in the Mouse Brain Proteome." <i>J Proteome Res</i> <b>15</b>(12):4731–4741; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27806573 27806573]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00927 10.1021/acs.jproteome.6b00927]; GPMDB: [http://gpmdb.org/data/keyword/27806573 48]. | ||
#Mardakheh FK, Self A, Marshall CJ, (2016) "RHO binding to FAM65A regulates Golgi reorientation during cell migration." <i>J Cell Sci</i> <b>129</b>(24):4466–4479; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27807006 27807006]; doi: [https://dx.doi.org/10.1242/jcs.198614 10.1242/jcs.198614]; GPMDB: [http://gpmdb.org/data/keyword/27807006 18]. | #Mardakheh FK, Self A, Marshall CJ, (2016) "RHO binding to FAM65A regulates Golgi reorientation during cell migration." <i>J Cell Sci</i> <b>129</b>(24):4466–4479; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27807006 27807006]; doi: [https://dx.doi.org/10.1242/jcs.198614 10.1242/jcs.198614]; GPMDB: [http://gpmdb.org/data/keyword/27807006 18]. | ||
#Leach MD, Kim T, DiGregorio S, Collins C, Zhang Z, Duennwald ML, Cowen LE, (2016) "Candida albicans Is Resistant to Polyglutamine Aggregation and Toxicity." <i>G3 (Bethesda)</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27807047 27807047]; doi: [https://dx.doi.org/10.1534/g3.116.035675 10.1534/g3.116.035675]; GPMDB: [http://gpmdb.org/data/keyword/27807047 6]. | #Leach MD, Kim T, DiGregorio S, Collins C, Zhang Z, Duennwald ML, Cowen LE, (2016) "Candida albicans Is Resistant to Polyglutamine Aggregation and Toxicity." <i>G3 (Bethesda)</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27807047 27807047]; doi: [https://dx.doi.org/10.1534/g3.116.035675 10.1534/g3.116.035675]; GPMDB: [http://gpmdb.org/data/keyword/27807047 6]. | ||
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#Wang J, Mauvoisin D, Martin E, Atger F, Galindo AN, Dayon L, Sizzano F, Palini A, Kussmann M, Waridel P, Quadroni M, Dulić V, Naef F, Gachon F, (2016) "Nuclear Proteomics Uncovers Diurnal Regulatory Landscapes in Mouse Liver." <i>Cell Metab</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27818260 27818260]; doi: [https://dx.doi.org/10.1016/j.cmet.2016.10.003 10.1016/j.cmet.2016.10.003]; GPMDB: [http://gpmdb.org/data/keyword/27818260 28]. | #Wang J, Mauvoisin D, Martin E, Atger F, Galindo AN, Dayon L, Sizzano F, Palini A, Kussmann M, Waridel P, Quadroni M, Dulić V, Naef F, Gachon F, (2016) "Nuclear Proteomics Uncovers Diurnal Regulatory Landscapes in Mouse Liver." <i>Cell Metab</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27818260 27818260]; doi: [https://dx.doi.org/10.1016/j.cmet.2016.10.003 10.1016/j.cmet.2016.10.003]; GPMDB: [http://gpmdb.org/data/keyword/27818260 28]. | ||
#Kogel U, Titz B, Schlage WK, Nury C, Martin F, Oviedo A, Lebrun S, Elamin A, Guedj E, Trivedi K, Ivanov NV, Vanscheeuwijck P, Peitsch MC, Hoeng J, (2016) "Evaluation of the Tobacco Heating System 2.2. Part 7: Systems toxicological assessment of a mentholated version revealed reduced cellular and molecular exposure effects compared with mentholated and non-mentholated cigarette smoke." <i>Regul Toxicol Pharmacol</i> <b>81 Suppl 2</b>:S123–S138; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27818347 27818347]; doi: [https://dx.doi.org/10.1016/j.yrtph.2016.11.001 10.1016/j.yrtph.2016.11.001]; GPMDB: [http://gpmdb.org/data/keyword/27818347 36]. | #Kogel U, Titz B, Schlage WK, Nury C, Martin F, Oviedo A, Lebrun S, Elamin A, Guedj E, Trivedi K, Ivanov NV, Vanscheeuwijck P, Peitsch MC, Hoeng J, (2016) "Evaluation of the Tobacco Heating System 2.2. Part 7: Systems toxicological assessment of a mentholated version revealed reduced cellular and molecular exposure effects compared with mentholated and non-mentholated cigarette smoke." <i>Regul Toxicol Pharmacol</i> <b>81 Suppl 2</b>:S123–S138; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27818347 27818347]; doi: [https://dx.doi.org/10.1016/j.yrtph.2016.11.001 10.1016/j.yrtph.2016.11.001]; GPMDB: [http://gpmdb.org/data/keyword/27818347 36]. | ||
+ | #Hansen RK, Mund A, Poulsen SL, Sandoval M, Klement K, Tsouroula K, Tollenaere MA, Räschle M, Soria R, Offermanns S, Worzfeld T, Grosse R, Brandt DT, Rozell B, Mann M, Cole F, Soutoglou E, Goodarzi AA, Daniel JA, Mailand N, Bekker-Jensen S, (2016) "SCAI promotes DNA double-strand break repair in distinct chromosomal contexts." <i>Nat Cell Biol</i> <b>18</b>(12):1357–1366; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27820601 27820601]; doi: [https://dx.doi.org/10.1038/ncb3436 10.1038/ncb3436]; GPMDB: [http://gpmdb.org/data/keyword/27820601 12]. | ||
#Schmitt K, Smolinski N, Neumann P, Schmaul S, Hofer-Pretz V, Braus GH, Valerius O, (2016) "Asc1p/RACK1 connects ribosomes to eukaryotic phospho-signaling." <i>Mol Cell Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27821475 27821475]; doi: [https://dx.doi.org/10.1128/MCB.00279-16 10.1128/MCB.00279-16]; GPMDB: [http://gpmdb.org/data/keyword/27821475 274]. | #Schmitt K, Smolinski N, Neumann P, Schmaul S, Hofer-Pretz V, Braus GH, Valerius O, (2016) "Asc1p/RACK1 connects ribosomes to eukaryotic phospho-signaling." <i>Mol Cell Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27821475 27821475]; doi: [https://dx.doi.org/10.1128/MCB.00279-16 10.1128/MCB.00279-16]; GPMDB: [http://gpmdb.org/data/keyword/27821475 274]. | ||
#Mardakheh FK, Sailem HZ, Kümper S, Tape CJ, McCully RR, Paul A, Anjomani-Virmouni S, Jørgensen C, Poulogiannis G, Marshall CJ, Bakal C, (2016) "Proteomics profiling of interactome dynamics by colocalisation analysis (COLA)." <i>Mol Biosyst</i> <b>13</b>(1):92–105; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27824369 27824369]; doi: [https://dx.doi.org/10.1039/c6mb00701e 10.1039/c6mb00701e]; GPMDB: [http://gpmdb.org/data/keyword/27824369 16]. | #Mardakheh FK, Sailem HZ, Kümper S, Tape CJ, McCully RR, Paul A, Anjomani-Virmouni S, Jørgensen C, Poulogiannis G, Marshall CJ, Bakal C, (2016) "Proteomics profiling of interactome dynamics by colocalisation analysis (COLA)." <i>Mol Biosyst</i> <b>13</b>(1):92–105; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27824369 27824369]; doi: [https://dx.doi.org/10.1039/c6mb00701e 10.1039/c6mb00701e]; GPMDB: [http://gpmdb.org/data/keyword/27824369 16]. | ||
+ | #Warpman Berglund U, Sanjiv K, Gad H, Kalderén C, Koolmeister T, Pham T, Gokturk C, Jafari R, Maddalo G, Seashore-Ludlow B, Chernobrovkin A, Manoilov A, Pateras IS, Rasti A, Jemth AS, Almlöf I, Loseva O, Visnes T, Einarsdottir BO, Gaugaz FZ, Saleh A, Platzack B, Wallner OA, Vallin KS, Henriksson M, Wakchaure P, Borhade S, Herr P, Kallberg Y, Baranczewski P, Homan EJ, Wiita E, Nagpal V, Meijer T, Schipper N, Rudd SG, Bräutigam L, Lindqvist A, Filppula A, Lee TC, Artursson P, Nilsson JA, Gorgoulis VG, Lehtiö J, Zubarev RA, Scobie M, Helleday T, (2016) "Validation and development of MTH1 inhibitors for treatment of cancer." <i>Ann Oncol</i> <b>27</b>(12):2275–2283; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27827301 27827301]; doi: [https://dx.doi.org/10.1093/annonc/mdw429 10.1093/annonc/mdw429]; GPMDB: [http://gpmdb.org/data/keyword/27827301 4]. | ||
#Liu Y, Sellegounder D, Sun J, (2016) "Neuronal GPCR OCTR-1 regulates innate immunity by controlling protein synthesis in Caenorhabditis elegans." <i>Sci Rep</i> <b>6</b>:36832; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27833098 27833098]; doi: [https://dx.doi.org/10.1038/srep36832 10.1038/srep36832]; GPMDB: [http://gpmdb.org/data/keyword/27833098 20]. | #Liu Y, Sellegounder D, Sun J, (2016) "Neuronal GPCR OCTR-1 regulates innate immunity by controlling protein synthesis in Caenorhabditis elegans." <i>Sci Rep</i> <b>6</b>:36832; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27833098 27833098]; doi: [https://dx.doi.org/10.1038/srep36832 10.1038/srep36832]; GPMDB: [http://gpmdb.org/data/keyword/27833098 20]. | ||
+ | #Doll S, Urisman A, Oses-Prieto JA, Arnott D, Burlingame AL, (2016) "Quantitative proteomics reveals fundamental regulatory differences in oncogenic HRAS and IDH1 driven astrocytoma." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27834733 27834733]; doi: [https://dx.doi.org/10.1074/mcp.M116.063883 10.1074/mcp.M116.063883]; GPMDB: [http://gpmdb.org/data/keyword/27834733 12]. | ||
#Valdés A, García-Cañas V, Artemenko KA, Simó C, Bergquist J, Cifuentes A, (2016) "Nano-liquid chromatography-orbitrap MS -based quantitative proteomics reveals differences between the mechanisms of action of carnosic acid and carnosol in colon cancer cells." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27834734 27834734]; doi: [https://dx.doi.org/10.1074/mcp.M116.061481 10.1074/mcp.M116.061481]; GPMDB: [http://gpmdb.org/data/keyword/27834734 54]. | #Valdés A, García-Cañas V, Artemenko KA, Simó C, Bergquist J, Cifuentes A, (2016) "Nano-liquid chromatography-orbitrap MS -based quantitative proteomics reveals differences between the mechanisms of action of carnosic acid and carnosol in colon cancer cells." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27834734 27834734]; doi: [https://dx.doi.org/10.1074/mcp.M116.061481 10.1074/mcp.M116.061481]; GPMDB: [http://gpmdb.org/data/keyword/27834734 54]. | ||
+ | #Plum S, Steinbach S, Attems J, Keers S, Riederer P, Gerlach M, May C, Marcus K, (2016) "Proteomic characterization of neuromelanin granules isolated from human substantia nigra by laser-microdissection." <i>Sci Rep</i> <b>6</b>:37139; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27841354 27841354]; doi: [https://dx.doi.org/10.1038/srep37139 10.1038/srep37139]; GPMDB: [http://gpmdb.org/data/keyword/27841354 9]. | ||
+ | #Eisenberg T, Abdellatif M, Schroeder S, Primessnig U, Stekovic S, Pendl T, Harger A, Schipke J, Zimmermann A, Schmidt A, Tong M, Ruckenstuhl C, Dammbrueck C, Gross AS, Herbst V, Magnes C, Trausinger G, Narath S, Meinitzer A, Hu Z, Kirsch A, Eller K, Carmona-Gutierrez D, Büttner S, Pietrocola F, Knittelfelder O, Schrepfer E, Rockenfeller P, Simonini C, Rahn A, Horsch M, Moreth K, Beckers J, Fuchs H, Gailus-Durner V, Neff F, Janik D, Rathkolb B, Rozman J, de Angelis MH, Moustafa T, Haemmerle G, Mayr M, Willeit P, von Frieling-Salewsky M, Pieske B, Scorrano L, Pieber T, Pechlaner R, Willeit J, Sigrist SJ, Linke WA, Mühlfeld C, Sadoshima J, Dengjel J, Kiechl S, Kroemer G, Sedej S, Madeo F, (2016) "Cardioprotection and lifespan extension by the natural polyamine spermidine." <i>Nat Med</i> <b>22</b>(12):1428–1438; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27841876 27841876]; doi: [https://dx.doi.org/10.1038/nm.4222 10.1038/nm.4222]; GPMDB: [http://gpmdb.org/data/keyword/27841876 9]. | ||
#Schmitges FW, Radovani E, Najafabadi HS, Barazandeh M, Campitelli LF, Yin Y, Jolma A, Zhong G, Guo H, Kanagalingam T, Dai WF, Taipale J, Emili A, Greenblatt JF, Hughes TR, (2016) "Multiparameter functional diversity of human C2H2 zinc finger proteins." <i>Genome Res</i> <b>26</b>(12):1742–1752; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27852650 27852650]; doi: [https://dx.doi.org/10.1101/gr.209643.116 10.1101/gr.209643.116]; GPMDB: [http://gpmdb.org/data/keyword/27852650 224]. | #Schmitges FW, Radovani E, Najafabadi HS, Barazandeh M, Campitelli LF, Yin Y, Jolma A, Zhong G, Guo H, Kanagalingam T, Dai WF, Taipale J, Emili A, Greenblatt JF, Hughes TR, (2016) "Multiparameter functional diversity of human C2H2 zinc finger proteins." <i>Genome Res</i> <b>26</b>(12):1742–1752; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27852650 27852650]; doi: [https://dx.doi.org/10.1101/gr.209643.116 10.1101/gr.209643.116]; GPMDB: [http://gpmdb.org/data/keyword/27852650 224]. | ||
+ | #Beringer M, Pisano P, Di Carlo V, Blanco E, Chammas P, Vizán P, Gutiérrez A, Aranda S, Payer B, Wierer M, Di Croce L, (2016) "EPOP Functionally Links Elongin and Polycomb in Pluripotent Stem Cells." <i>Mol Cell</i> <b>64</b>(4):645–658; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27863225 27863225]; doi: [https://dx.doi.org/10.1016/j.molcel.2016.10.018 10.1016/j.molcel.2016.10.018]; GPMDB: [http://gpmdb.org/data/keyword/27863225 12]. | ||
#Bassani-Sternberg M, Bräunlein E, Klar R, Engleitner T, Sinitcyn P, Audehm S, Straub M, Weber J, Slotta-Huspenina J, Specht K, Martignoni ME, Werner A, Hein R, H Busch D, Peschel C, Rad R, Cox J, Mann M, Krackhardt AM, (2016) "Direct identification of clinically relevant neoepitopes presented on native human melanoma tissue by mass spectrometry." <i>Nat Commun</i> <b>7</b>:13404; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27869121 27869121]; doi: [https://dx.doi.org/10.1038/ncomms13404 10.1038/ncomms13404]; GPMDB: [http://gpmdb.org/data/keyword/27869121 138]. | #Bassani-Sternberg M, Bräunlein E, Klar R, Engleitner T, Sinitcyn P, Audehm S, Straub M, Weber J, Slotta-Huspenina J, Specht K, Martignoni ME, Werner A, Hein R, H Busch D, Peschel C, Rad R, Cox J, Mann M, Krackhardt AM, (2016) "Direct identification of clinically relevant neoepitopes presented on native human melanoma tissue by mass spectrometry." <i>Nat Commun</i> <b>7</b>:13404; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27869121 27869121]; doi: [https://dx.doi.org/10.1038/ncomms13404 10.1038/ncomms13404]; GPMDB: [http://gpmdb.org/data/keyword/27869121 138]. | ||
#Wallace PW, Haernvall K, Ribitsch D, Zitzenbacher S, Schittmayer M, Steinkellner G, Gruber K, Guebitz GM, Birner-Gruenberger R, (2016) "PpEst is a novel PBAT degrading polyesterase identified by proteomic screening of Pseudomonas pseudoalcaligenes." <i>Appl Microbiol Biotechnol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27872998 27872998]; doi: [https://dx.doi.org/10.1007/s00253-016-7992-8 10.1007/s00253-016-7992-8]; GPMDB: [http://gpmdb.org/data/keyword/27872998 28]. | #Wallace PW, Haernvall K, Ribitsch D, Zitzenbacher S, Schittmayer M, Steinkellner G, Gruber K, Guebitz GM, Birner-Gruenberger R, (2016) "PpEst is a novel PBAT degrading polyesterase identified by proteomic screening of Pseudomonas pseudoalcaligenes." <i>Appl Microbiol Biotechnol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27872998 27872998]; doi: [https://dx.doi.org/10.1007/s00253-016-7992-8 10.1007/s00253-016-7992-8]; GPMDB: [http://gpmdb.org/data/keyword/27872998 28]. | ||
+ | #Muqaku B, Eisninger M, Meier SM, Tahir A, Prokop T, Haferkamp S, Slany A, Reichle A, Gerner C, (2016) "Multi-omics analysis of serum samples demonstrates reprogramming of organ functions via systemic calcium mobilization and platelet activation in metastatic melanoma." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27879288 27879288]; doi: [https://dx.doi.org/10.1074/mcp.M116.063313 10.1074/mcp.M116.063313]; GPMDB: [http://gpmdb.org/data/keyword/27879288 18]. | ||
#St-Denis N, Gupta GD, Lin ZY, Gonzalez-Badillo B, Veri AO, Knight JD, Rajendran D, Couzens AL, Currie KW, Tkach JM, Cheung SW, Pelletier L, Gingras AC, (2016) "Phenotypic and Interaction Profiling of the Human Phosphatases Identifies Diverse Mitotic Regulators." <i>Cell Rep</i> <b>17</b>(9):2488–2501; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27880917 27880917]; doi: [https://dx.doi.org/10.1016/j.celrep.2016.10.078 10.1016/j.celrep.2016.10.078]; GPMDB: [http://gpmdb.org/data/keyword/27880917 315]. | #St-Denis N, Gupta GD, Lin ZY, Gonzalez-Badillo B, Veri AO, Knight JD, Rajendran D, Couzens AL, Currie KW, Tkach JM, Cheung SW, Pelletier L, Gingras AC, (2016) "Phenotypic and Interaction Profiling of the Human Phosphatases Identifies Diverse Mitotic Regulators." <i>Cell Rep</i> <b>17</b>(9):2488–2501; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27880917 27880917]; doi: [https://dx.doi.org/10.1016/j.celrep.2016.10.078 10.1016/j.celrep.2016.10.078]; GPMDB: [http://gpmdb.org/data/keyword/27880917 315]. | ||
#Sheppard C, Blombach F, Belsom A, Schulz S, Daviter T, Smollett K, Mahieu E, Erdmann S, Tinnefeld P, Garrett R, Grohmann D, Rappsilber J, Werner F, (2016) "Repression of RNA polymerase by the archaeo-viral regulator ORF145/RIP." <i>Nat Commun</i> <b>7</b>:13595; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27882920 27882920]; doi: [https://dx.doi.org/10.1038/ncomms13595 10.1038/ncomms13595]; GPMDB: [http://gpmdb.org/data/keyword/27882920 9]. | #Sheppard C, Blombach F, Belsom A, Schulz S, Daviter T, Smollett K, Mahieu E, Erdmann S, Tinnefeld P, Garrett R, Grohmann D, Rappsilber J, Werner F, (2016) "Repression of RNA polymerase by the archaeo-viral regulator ORF145/RIP." <i>Nat Commun</i> <b>7</b>:13595; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27882920 27882920]; doi: [https://dx.doi.org/10.1038/ncomms13595 10.1038/ncomms13595]; GPMDB: [http://gpmdb.org/data/keyword/27882920 9]. | ||
+ | #Tatham MH, Cole C, Scullion P, Wilkie R, Westwood NJ, Stark LA, Hay RT, (2016) "A proteomic approach to analyse the aspirin-mediated lysine acetylome." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27913581 27913581]; doi: [https://dx.doi.org/10.1074/mcp.O116.065219 10.1074/mcp.O116.065219]; GPMDB: [http://gpmdb.org/data/keyword/27913581 40]. | ||
#Beaumont V, Zhong S, Lin H, Xu W, Bradaia A, Steidl E, Gleyzes M, Wadel K, Buisson B, Padovan-Neto FE, Chakroborty S, Ward KM, Harms JF, Beltran J, Kwan M, Ghavami A, Häggkvist J, Tóth M, Halldin C, Varrone A, Schaab C, Dybowski JN, Elschenbroich S, Lehtimäki K, Heikkinen T, Park L, Rosinski J, Mrzljak L, Lavery D, West AR, Schmidt CJ, Zaleska MM, Munoz-Sanjuan I, (2016) "Phosphodiesterase 10A Inhibition Improves Cortico-Basal Ganglia Function in Huntington's Disease Models." <i>Neuron</i> <b>92</b>(6):1220–1237; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27916455 27916455]; doi: [https://dx.doi.org/10.1016/j.neuron.2016.10.064 10.1016/j.neuron.2016.10.064]; GPMDB: [http://gpmdb.org/data/keyword/27916455 377]. | #Beaumont V, Zhong S, Lin H, Xu W, Bradaia A, Steidl E, Gleyzes M, Wadel K, Buisson B, Padovan-Neto FE, Chakroborty S, Ward KM, Harms JF, Beltran J, Kwan M, Ghavami A, Häggkvist J, Tóth M, Halldin C, Varrone A, Schaab C, Dybowski JN, Elschenbroich S, Lehtimäki K, Heikkinen T, Park L, Rosinski J, Mrzljak L, Lavery D, West AR, Schmidt CJ, Zaleska MM, Munoz-Sanjuan I, (2016) "Phosphodiesterase 10A Inhibition Improves Cortico-Basal Ganglia Function in Huntington's Disease Models." <i>Neuron</i> <b>92</b>(6):1220–1237; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27916455 27916455]; doi: [https://dx.doi.org/10.1016/j.neuron.2016.10.064 10.1016/j.neuron.2016.10.064]; GPMDB: [http://gpmdb.org/data/keyword/27916455 377]. | ||
#Tiberti N, Latham SL, Bush S, Cohen A, Opoka RO, John CC, Juillard A, Grau GE, Combes V, (2016) "Exploring experimental cerebral malaria pathogenesis through the characterisation of host-derived plasma microparticle protein content." <i>Sci Rep</i> <b>6</b>:37871; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27917875 27917875]; doi: [https://dx.doi.org/10.1038/srep37871 10.1038/srep37871]; GPMDB: [http://gpmdb.org/data/keyword/27917875 4]. | #Tiberti N, Latham SL, Bush S, Cohen A, Opoka RO, John CC, Juillard A, Grau GE, Combes V, (2016) "Exploring experimental cerebral malaria pathogenesis through the characterisation of host-derived plasma microparticle protein content." <i>Sci Rep</i> <b>6</b>:37871; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27917875 27917875]; doi: [https://dx.doi.org/10.1038/srep37871 10.1038/srep37871]; GPMDB: [http://gpmdb.org/data/keyword/27917875 4]. | ||
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#Zhao H, Konzer A, Mi J, Chen M, Pettersson U, Lind SB, (2016) "Posttranscriptional Regulation in Adenovirus Infected Cells." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27959563 27959563]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00834 10.1021/acs.jproteome.6b00834]; GPMDB: [http://gpmdb.org/data/keyword/27959563 6]. | #Zhao H, Konzer A, Mi J, Chen M, Pettersson U, Lind SB, (2016) "Posttranscriptional Regulation in Adenovirus Infected Cells." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27959563 27959563]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00834 10.1021/acs.jproteome.6b00834]; GPMDB: [http://gpmdb.org/data/keyword/27959563 6]. | ||
#Dauden MI, Kosinski J, Kolaj-Robin O, Desfosses A, Ori A, Faux C, Hoffmann NA, Onuma OF, Breunig KD, Beck M, Sachse C, Séraphin B, Glatt S, Müller CW, (2016) "Architecture of the yeast Elongator complex." <i>EMBO Rep</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27974378 27974378]; doi: [https://dx.doi.org/10.15252/embr.201643353 10.15252/embr.201643353]; GPMDB: [http://gpmdb.org/data/keyword/27974378 44]. | #Dauden MI, Kosinski J, Kolaj-Robin O, Desfosses A, Ori A, Faux C, Hoffmann NA, Onuma OF, Breunig KD, Beck M, Sachse C, Séraphin B, Glatt S, Müller CW, (2016) "Architecture of the yeast Elongator complex." <i>EMBO Rep</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27974378 27974378]; doi: [https://dx.doi.org/10.15252/embr.201643353 10.15252/embr.201643353]; GPMDB: [http://gpmdb.org/data/keyword/27974378 44]. | ||
+ | #Herfs M, Longuespée R, Quick CM, Roncarati P, Suarez-Carmona M, Hubert P, Lebeau A, Bruyere D, Mazzucchelli G, Smargiasso N, Baiwir D, Lai K, Dunn A, Obregon F, Yang EJ, De Pauw E, Crum CP, Delvenne P, (2016) "Proteomic signatures reveal a dualistic and clinically relevant classification of anal canal carcinoma." <i>J Pathol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27976366 27976366]; doi: [https://dx.doi.org/10.1002/path.4858 10.1002/path.4858]; GPMDB: [http://gpmdb.org/data/keyword/27976366 60]. | ||
#Choi M, Eren-Dogu ZF, Colangelo CM, Cottrell JS, Hoopmann MR, Kapp EA, Kim S, Lam H, Neubert TA, Palmblad M, Phinney BS, Weintraub ST, MacLean B, Vitek O, (2016) "ABRF Proteome Informatics Research Group (iPRG) 2015 Study: Detection of differentially abundant proteins in label-free quantitative LC-MS/MS experiments." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27990823 27990823]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00881 10.1021/acs.jproteome.6b00881]; GPMDB: [http://gpmdb.org/data/keyword/27990823 12]. | #Choi M, Eren-Dogu ZF, Colangelo CM, Cottrell JS, Hoopmann MR, Kapp EA, Kim S, Lam H, Neubert TA, Palmblad M, Phinney BS, Weintraub ST, MacLean B, Vitek O, (2016) "ABRF Proteome Informatics Research Group (iPRG) 2015 Study: Detection of differentially abundant proteins in label-free quantitative LC-MS/MS experiments." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27990823 27990823]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00881 10.1021/acs.jproteome.6b00881]; GPMDB: [http://gpmdb.org/data/keyword/27990823 12]. | ||
+ | #Geyer PE, Wewer Albrechtsen NJ, Tyanova S, Grassl N, Iepsen EW, Lundgren J, Madsbad S, Holst JJ, Torekov SS, Mann M, (2016) "Proteomics reveals the effects of sustained weight loss on the human plasma proteome." <i>Mol Syst Biol</i> <b>12</b>(12):901; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28007936 28007936]; GPMDB: [http://gpmdb.org/data/keyword/28007936 144]. |
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 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 January 8, 2017.