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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 September | + | 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 September 24, 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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#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]. | ||
#Hurwitz SN, Rider MA, Bundy JL, Liu X, Singh RK, Meckes DG Jr, (2016) "Proteomic profiling of NCI-60 extracellular vesicles uncovers common protein cargo and cancer type-specific biomarkers." <i>Oncotarget</i> <b>7</b>(52):86999–87015; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27894104 27894104]; doi: [https://dx.doi.org/10.18632/oncotarget.13569 10.18632/oncotarget.13569]; GPMDB: [http://gpmdb.org/data/keyword/27894104 898]. | #Hurwitz SN, Rider MA, Bundy JL, Liu X, Singh RK, Meckes DG Jr, (2016) "Proteomic profiling of NCI-60 extracellular vesicles uncovers common protein cargo and cancer type-specific biomarkers." <i>Oncotarget</i> <b>7</b>(52):86999–87015; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27894104 27894104]; doi: [https://dx.doi.org/10.18632/oncotarget.13569 10.18632/oncotarget.13569]; GPMDB: [http://gpmdb.org/data/keyword/27894104 898]. | ||
+ | #Gonneaud A, Jones C, Turgeon N, Lévesque D, Asselin C, Boudreau F, Boisvert FM, (2016) "A SILAC-Based Method for Quantitative Proteomic Analysis of Intestinal Organoids." <i>Sci Rep</i> <b>6</b>:38195; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27901089 27901089]; doi: [https://dx.doi.org/10.1038/srep38195 10.1038/srep38195]; GPMDB: [http://gpmdb.org/data/keyword/27901089 38]. | ||
#Sundberg M, Strage EM, Bergquist J, Holst BS, Ramström M, (2016) "Quantitative and Selective Analysis of Feline Growth Related Proteins Using Parallel Reaction Monitoring High Resolution Mass Spectrometry." <i>PLoS One</i> <b>11</b>(12):e0167138; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27907059 27907059]; doi: [https://dx.doi.org/10.1371/journal.pone.0167138 10.1371/journal.pone.0167138]; GPMDB: [http://gpmdb.org/data/keyword/27907059 3]. | #Sundberg M, Strage EM, Bergquist J, Holst BS, Ramström M, (2016) "Quantitative and Selective Analysis of Feline Growth Related Proteins Using Parallel Reaction Monitoring High Resolution Mass Spectrometry." <i>PLoS One</i> <b>11</b>(12):e0167138; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27907059 27907059]; doi: [https://dx.doi.org/10.1371/journal.pone.0167138 10.1371/journal.pone.0167138]; GPMDB: [http://gpmdb.org/data/keyword/27907059 3]. | ||
#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]. | #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]. | ||
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#Langley SR, Willeit K, Didangelos A, Matic LP, Skroblin P, Barallobre-Barreiro J, Lengquist M, Rungger G, Kapustin A, Kedenko L, Molenaar C, Lu R, Barwari T, Suna G, Yin X, Iglseder B, Paulweber B, Willeit P, Shalhoub J, Pasterkamp G, Davies AH, Monaco C, Hedin U, Shanahan CM, Willeit J, Kiechl S, Mayr M, (2017) "Extracellular matrix proteomics identifies molecular signature of symptomatic carotid plaques." <i>J Clin Invest</i> <b>127</b>(4):1546–1560; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28319050 28319050]; doi: [https://dx.doi.org/10.1172/JCI86924 10.1172/JCI86924]; GPMDB: [http://gpmdb.org/data/keyword/28319050 936]. | #Langley SR, Willeit K, Didangelos A, Matic LP, Skroblin P, Barallobre-Barreiro J, Lengquist M, Rungger G, Kapustin A, Kedenko L, Molenaar C, Lu R, Barwari T, Suna G, Yin X, Iglseder B, Paulweber B, Willeit P, Shalhoub J, Pasterkamp G, Davies AH, Monaco C, Hedin U, Shanahan CM, Willeit J, Kiechl S, Mayr M, (2017) "Extracellular matrix proteomics identifies molecular signature of symptomatic carotid plaques." <i>J Clin Invest</i> <b>127</b>(4):1546–1560; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28319050 28319050]; doi: [https://dx.doi.org/10.1172/JCI86924 10.1172/JCI86924]; GPMDB: [http://gpmdb.org/data/keyword/28319050 936]. | ||
#Kliza K, Taumer C, Pinzuti I, Franz-Wachtel M, Kunzelmann S, Stieglitz B, Macek B, Husnjak K, (2017) "Internally tagged ubiquitin: a tool to identify linear polyubiquitin-modified proteins by mass spectrometry." <i>Nat Methods</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28319114 28319114]; doi: [https://dx.doi.org/10.1038/nmeth.4228 10.1038/nmeth.4228]; GPMDB: [http://gpmdb.org/data/keyword/28319114 32]. | #Kliza K, Taumer C, Pinzuti I, Franz-Wachtel M, Kunzelmann S, Stieglitz B, Macek B, Husnjak K, (2017) "Internally tagged ubiquitin: a tool to identify linear polyubiquitin-modified proteins by mass spectrometry." <i>Nat Methods</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28319114 28319114]; doi: [https://dx.doi.org/10.1038/nmeth.4228 10.1038/nmeth.4228]; GPMDB: [http://gpmdb.org/data/keyword/28319114 32]. | ||
+ | #Khodadoust MS, Olsson N, Wagar LE, Haabeth OA, Chen B, Swaminathan K, Rawson K, Liu CL, Steiner D, Lund P, Rao S, Zhang L, Marceau C, Stehr H, Newman AM, Czerwinski DK, Carlton VE, Moorhead M, Faham M, Kohrt HE, Carette J, Green MR, Davis MM, Levy R, Elias JE, Alizadeh AA, (2017) "Antigen presentation profiling reveals recognition of lymphoma immunoglobulin neoantigens." <i>Nature</i> <b>543</b>(7647):723–727; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28329770 28329770]; doi: [https://dx.doi.org/10.1038/nature21433 10.1038/nature21433]; GPMDB: [http://gpmdb.org/data/keyword/28329770 147]. | ||
#Zhang X, Maity T, Kashyap MK, Bansal M, Venugopalan A, Singh S, Awasthi S, Marimuthu A, Jacob HK, Belkina N, Pitts S, Cultraro CM, Gao S, Kirkali F, Biswas R, Chaerkady R, Califano A, Pandey A, Guha U, (2017) "Quantitative tyrosine phosphoproteomics of EGFR tyrosine kinase inhibitor-treated lung adenocarcinoma cells reveals potential novel biomarkers of therapeutic response." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28331001 28331001]; doi: [https://dx.doi.org/10.1074/mcp.M117.067439 10.1074/mcp.M117.067439]; GPMDB: [http://gpmdb.org/data/keyword/28331001 41]. | #Zhang X, Maity T, Kashyap MK, Bansal M, Venugopalan A, Singh S, Awasthi S, Marimuthu A, Jacob HK, Belkina N, Pitts S, Cultraro CM, Gao S, Kirkali F, Biswas R, Chaerkady R, Califano A, Pandey A, Guha U, (2017) "Quantitative tyrosine phosphoproteomics of EGFR tyrosine kinase inhibitor-treated lung adenocarcinoma cells reveals potential novel biomarkers of therapeutic response." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28331001 28331001]; doi: [https://dx.doi.org/10.1074/mcp.M117.067439 10.1074/mcp.M117.067439]; GPMDB: [http://gpmdb.org/data/keyword/28331001 41]. | ||
#Nathan A, Reinhardt P, Kruspe D, Jörß T, Groth M, Nolte H, Habenicht A, Herrmann J, Holschbach V, Toth B, Krüger M, Wang ZQ, Platzer M, Englert C, (2017) "The Wilms tumor protein Wt1 contributes to female fertility by regulating oviductal proteostasis." <i>Hum Mol Genet</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28334862 28334862]; doi: [https://dx.doi.org/10.1093/hmg/ddx075 10.1093/hmg/ddx075]; GPMDB: [http://gpmdb.org/data/keyword/28334862 48]. | #Nathan A, Reinhardt P, Kruspe D, Jörß T, Groth M, Nolte H, Habenicht A, Herrmann J, Holschbach V, Toth B, Krüger M, Wang ZQ, Platzer M, Englert C, (2017) "The Wilms tumor protein Wt1 contributes to female fertility by regulating oviductal proteostasis." <i>Hum Mol Genet</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28334862 28334862]; doi: [https://dx.doi.org/10.1093/hmg/ddx075 10.1093/hmg/ddx075]; GPMDB: [http://gpmdb.org/data/keyword/28334862 48]. | ||
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#Smallwood HS, Duan S, Morfouace M, Rezinciuc S, Shulkin BL, Shelat A, Zink EE, Milasta S, Bajracharya R, Oluwaseum AJ, Roussel MF, Green DR, Pasa-Tolic L, Thomas PG, (2017) "Targeting Metabolic Reprogramming by Influenza Infection for Therapeutic Intervention." <i>Cell Rep</i> <b>19</b>(8):1640–1653; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28538182 28538182]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.04.039 10.1016/j.celrep.2017.04.039]; GPMDB: [http://gpmdb.org/data/keyword/28538182 11]. | #Smallwood HS, Duan S, Morfouace M, Rezinciuc S, Shulkin BL, Shelat A, Zink EE, Milasta S, Bajracharya R, Oluwaseum AJ, Roussel MF, Green DR, Pasa-Tolic L, Thomas PG, (2017) "Targeting Metabolic Reprogramming by Influenza Infection for Therapeutic Intervention." <i>Cell Rep</i> <b>19</b>(8):1640–1653; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28538182 28538182]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.04.039 10.1016/j.celrep.2017.04.039]; GPMDB: [http://gpmdb.org/data/keyword/28538182 11]. | ||
#Elmasri WA, Zhu R, Peng W, Al-Hariri M, Kobeissy F, Tran P, Hamood AN, Hegazy MF, Paré PW, Mechref Y, (2017) "Multitargeted Flavonoid Inhibition of the Pathogenic Bacterium Staphylococcus aureus: A Proteomic Characterization." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28541047 28541047]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00137 10.1021/acs.jproteome.7b00137]; GPMDB: [http://gpmdb.org/data/keyword/28541047 12]. | #Elmasri WA, Zhu R, Peng W, Al-Hariri M, Kobeissy F, Tran P, Hamood AN, Hegazy MF, Paré PW, Mechref Y, (2017) "Multitargeted Flavonoid Inhibition of the Pathogenic Bacterium Staphylococcus aureus: A Proteomic Characterization." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28541047 28541047]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00137 10.1021/acs.jproteome.7b00137]; GPMDB: [http://gpmdb.org/data/keyword/28541047 12]. | ||
+ | #Fijalkowska D, Verbruggen S, Ndah E, Jonckheere V, Menschaert G, Van Damme P, (2017) "eIF1 modulates the recognition of suboptimal translation initiation sites and steers gene expression via uORFs." <i>Nucleic Acids Res</i> <b>45</b>(13):7997–8013; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28541577 28541577]; doi: [https://dx.doi.org/10.1093/nar/gkx469 10.1093/nar/gkx469]; GPMDB: [http://gpmdb.org/data/keyword/28541577 19]. | ||
#Kume K, Cantwell H, Neumann FR, Jones AW, Snijders AP, Nurse P, (2017) "A systematic genomic screen implicates nucleocytoplasmic transport and membrane growth in nuclear size control." <i>PLoS Genet</i> <b>13</b>(5):e1006767; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28545058 28545058]; doi: [https://dx.doi.org/10.1371/journal.pgen.1006767 10.1371/journal.pgen.1006767]; GPMDB: [http://gpmdb.org/data/keyword/28545058 192]. | #Kume K, Cantwell H, Neumann FR, Jones AW, Snijders AP, Nurse P, (2017) "A systematic genomic screen implicates nucleocytoplasmic transport and membrane growth in nuclear size control." <i>PLoS Genet</i> <b>13</b>(5):e1006767; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28545058 28545058]; doi: [https://dx.doi.org/10.1371/journal.pgen.1006767 10.1371/journal.pgen.1006767]; GPMDB: [http://gpmdb.org/data/keyword/28545058 192]. | ||
#Meier SM, Kreutz D, Winter L, Klose MHM, Cseh K, Weiss T, Bileck A, Alte B, Mader JC, Jana S, Chatterjee A, Bhattacharyya A, Hejl M, Jakupec MA, Heffeter P, Berger W, Hartinger CG, Keppler BK, Wiche G, Gerner C, (2017) "An Organoruthenium Anticancer Agent Shows Unexpected Target Selectivity For Plectin." <i>Angew Chem Int Ed Engl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28547791 28547791]; doi: [https://dx.doi.org/10.1002/anie.201702242 10.1002/anie.201702242]; GPMDB: [http://gpmdb.org/data/keyword/28547791 4]. | #Meier SM, Kreutz D, Winter L, Klose MHM, Cseh K, Weiss T, Bileck A, Alte B, Mader JC, Jana S, Chatterjee A, Bhattacharyya A, Hejl M, Jakupec MA, Heffeter P, Berger W, Hartinger CG, Keppler BK, Wiche G, Gerner C, (2017) "An Organoruthenium Anticancer Agent Shows Unexpected Target Selectivity For Plectin." <i>Angew Chem Int Ed Engl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28547791 28547791]; doi: [https://dx.doi.org/10.1002/anie.201702242 10.1002/anie.201702242]; GPMDB: [http://gpmdb.org/data/keyword/28547791 4]. | ||
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#Sun C, De Mello V, Mohamed A, Ortuste Quiroga HP, Garcia-Munoz A, Al Bloshi A, Tremblay AM, von Kriegsheim A, Collie-Duguid E, Vargesson N, Matallanas D, Wackerhage H, Zammit PS, (2017) "Common and Distinctive Functions of the Hippo Effectors Taz and Yap in Skeletal Muscle Stem Cell Function." <i>Stem Cells</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28589555 28589555]; doi: [https://dx.doi.org/10.1002/stem.2652 10.1002/stem.2652]; GPMDB: [http://gpmdb.org/data/keyword/28589555 36]. | #Sun C, De Mello V, Mohamed A, Ortuste Quiroga HP, Garcia-Munoz A, Al Bloshi A, Tremblay AM, von Kriegsheim A, Collie-Duguid E, Vargesson N, Matallanas D, Wackerhage H, Zammit PS, (2017) "Common and Distinctive Functions of the Hippo Effectors Taz and Yap in Skeletal Muscle Stem Cell Function." <i>Stem Cells</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28589555 28589555]; doi: [https://dx.doi.org/10.1002/stem.2652 10.1002/stem.2652]; GPMDB: [http://gpmdb.org/data/keyword/28589555 36]. | ||
#Zhang J, Lu S, Zhou Y, Meng K, Chen Z, Cui Y, Shi Y, Wang T, He QY, (2017) "Motile hepatocellular carcinoma cells preferentially secret sugar metabolism regulatory proteins via exosomes." <i>Proteomics</i> <b>17</b>(13-14):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28590090 28590090]; doi: [https://dx.doi.org/10.1002/pmic.201700103 10.1002/pmic.201700103]; GPMDB: [http://gpmdb.org/data/keyword/28590090 6]. | #Zhang J, Lu S, Zhou Y, Meng K, Chen Z, Cui Y, Shi Y, Wang T, He QY, (2017) "Motile hepatocellular carcinoma cells preferentially secret sugar metabolism regulatory proteins via exosomes." <i>Proteomics</i> <b>17</b>(13-14):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28590090 28590090]; doi: [https://dx.doi.org/10.1002/pmic.201700103 10.1002/pmic.201700103]; GPMDB: [http://gpmdb.org/data/keyword/28590090 6]. | ||
+ | #Jensen SR, Schoof EM, Wheeler SE, Hvid H, Ahnfelt-Rønne J, Hansen BF, Nishimura E, Olsen GS, Kislinger T, Brubaker PL, (2017) "Quantitative Proteomics of Intestinal Mucosa From Male Mice Lacking Intestinal Epithelial Insulin Receptors." <i>Endocrinology</i> <b>158</b>(8):2470–2485; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28591806 28591806]; doi: [https://dx.doi.org/10.1210/en.2017-00194 10.1210/en.2017-00194]; GPMDB: [http://gpmdb.org/data/keyword/28591806 10]. | ||
#Bekker-Jensen DB, Kelstrup CD, Batth TS, Larsen SC, Haldrup C, Bramsen JB, Sørensen KD, Høyer S, Ørntoft TF, Andersen CL, Nielsen ML, Olsen JV, (2017) "An Optimized Shotgun Strategy for the Rapid Generation of Comprehensive Human Proteomes." <i>Cell Syst</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28601559 28601559]; doi: [https://dx.doi.org/10.1016/j.cels.2017.05.009 10.1016/j.cels.2017.05.009]; GPMDB: [http://gpmdb.org/data/keyword/28601559 93]. | #Bekker-Jensen DB, Kelstrup CD, Batth TS, Larsen SC, Haldrup C, Bramsen JB, Sørensen KD, Høyer S, Ørntoft TF, Andersen CL, Nielsen ML, Olsen JV, (2017) "An Optimized Shotgun Strategy for the Rapid Generation of Comprehensive Human Proteomes." <i>Cell Syst</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28601559 28601559]; doi: [https://dx.doi.org/10.1016/j.cels.2017.05.009 10.1016/j.cels.2017.05.009]; GPMDB: [http://gpmdb.org/data/keyword/28601559 93]. | ||
#Lapek JD Jr, Lewinski MK, Wozniak JM, Guatelli J, Gonzalez DJ, (2017) "Quantitative Temporal Viromics of an Inducible HIV-1 Model Yields Insight to Global Host Targets and Phospho-Dynamics Associated with Vpr." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28606917 28606917]; doi: [https://dx.doi.org/10.1074/mcp.M116.066019 10.1074/mcp.M116.066019]; GPMDB: [http://gpmdb.org/data/keyword/28606917 4]. | #Lapek JD Jr, Lewinski MK, Wozniak JM, Guatelli J, Gonzalez DJ, (2017) "Quantitative Temporal Viromics of an Inducible HIV-1 Model Yields Insight to Global Host Targets and Phospho-Dynamics Associated with Vpr." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28606917 28606917]; doi: [https://dx.doi.org/10.1074/mcp.M116.066019 10.1074/mcp.M116.066019]; GPMDB: [http://gpmdb.org/data/keyword/28606917 4]. | ||
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#Plenker D, Riedel M, Brägelmann J, Dammert MA, Chauhan R, Knowles PP, Lorenz C, Keul M, Bührmann M, Pagel O, Tischler V, Scheel AH, Schütte D, Song Y, Stark J, Mrugalla F, Alber Y, Richters A, Engel J, Leenders F, Heuckmann JM, Wolf J, Diebold J, Pall G, Peifer M, Aerts M, Gevaert K, Zahedi RP, Buettner R, Shokat KM, McDonald NQ, Kast SM, Gautschi O, Thomas RK, Sos ML, (2017) "Drugging the catalytically inactive state of RET kinase in RET-rearranged tumors." <i>Sci Transl Med</i> <b>9</b>(394):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28615362 28615362]; doi: [https://dx.doi.org/10.1126/scitranslmed.aah6144 10.1126/scitranslmed.aah6144]; GPMDB: [http://gpmdb.org/data/keyword/28615362 17]. | #Plenker D, Riedel M, Brägelmann J, Dammert MA, Chauhan R, Knowles PP, Lorenz C, Keul M, Bührmann M, Pagel O, Tischler V, Scheel AH, Schütte D, Song Y, Stark J, Mrugalla F, Alber Y, Richters A, Engel J, Leenders F, Heuckmann JM, Wolf J, Diebold J, Pall G, Peifer M, Aerts M, Gevaert K, Zahedi RP, Buettner R, Shokat KM, McDonald NQ, Kast SM, Gautschi O, Thomas RK, Sos ML, (2017) "Drugging the catalytically inactive state of RET kinase in RET-rearranged tumors." <i>Sci Transl Med</i> <b>9</b>(394):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28615362 28615362]; doi: [https://dx.doi.org/10.1126/scitranslmed.aah6144 10.1126/scitranslmed.aah6144]; GPMDB: [http://gpmdb.org/data/keyword/28615362 17]. | ||
#Marx H, Hahne H, Ulbrich SE, Schnieke A, Rottmann O, Frishman D, Kuster B, (2017) "Annotation of the Domestic Pig Genome by Quantitative Proteogenomics." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28625053 28625053]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00184 10.1021/acs.jproteome.7b00184]; GPMDB: [http://gpmdb.org/data/keyword/28625053 181]. | #Marx H, Hahne H, Ulbrich SE, Schnieke A, Rottmann O, Frishman D, Kuster B, (2017) "Annotation of the Domestic Pig Genome by Quantitative Proteogenomics." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28625053 28625053]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00184 10.1021/acs.jproteome.7b00184]; GPMDB: [http://gpmdb.org/data/keyword/28625053 181]. | ||
+ | #Wang J, Mouradov D, Wang X, Jorissen RN, Chambers MC, Zimmerman LJ, Vasaikar S, Love CG, Li S, Lowes K, Leuchowius KJ, Jousset H, Weinstock J, Yau C, Mariadason J, Shi Z, Ban Y, Chen X, Coffey RJC, Slebos RJC, Burgess AW, Liebler DC, Zhang B, Sieber OM, (2017) "Colorectal Cancer Cell Line Proteomes are Representative of Primary Tumors and Predict Drug Sensitivity." <i>Gastroenterology</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28625833 28625833]; doi: [https://dx.doi.org/10.1053/j.gastro.2017.06.008 10.1053/j.gastro.2017.06.008]; GPMDB: [http://gpmdb.org/data/keyword/28625833 44]. | ||
#Taleb RSZ, Moez P, Younan D, Eisenacher M, Tenbusch M, Sitek B, Bracht T, (2017) "Quantitative proteome analysis of plasma microparticles for the characterization of HCV-induced hepatic cirrhosis and hepatocellular carcinoma." <i>Proteomics Clin Appl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28626882 28626882]; doi: [https://dx.doi.org/10.1002/prca.201700014 10.1002/prca.201700014]; GPMDB: [http://gpmdb.org/data/keyword/28626882 56]. | #Taleb RSZ, Moez P, Younan D, Eisenacher M, Tenbusch M, Sitek B, Bracht T, (2017) "Quantitative proteome analysis of plasma microparticles for the characterization of HCV-induced hepatic cirrhosis and hepatocellular carcinoma." <i>Proteomics Clin Appl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28626882 28626882]; doi: [https://dx.doi.org/10.1002/prca.201700014 10.1002/prca.201700014]; GPMDB: [http://gpmdb.org/data/keyword/28626882 56]. | ||
#Qin G, Dang M, Gao H, Wang H, Luo F, Chen R, (2017) "Deciphering the protein-protein interaction network regulating hepatocellular carcinoma metastasis." <i>Biochim Biophys Acta</i> <b>1865</b>(9):1114–1122; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28627476 28627476]; doi: [https://dx.doi.org/10.1016/j.bbapap.2017.06.005 10.1016/j.bbapap.2017.06.005]; GPMDB: [http://gpmdb.org/data/keyword/28627476 6]. | #Qin G, Dang M, Gao H, Wang H, Luo F, Chen R, (2017) "Deciphering the protein-protein interaction network regulating hepatocellular carcinoma metastasis." <i>Biochim Biophys Acta</i> <b>1865</b>(9):1114–1122; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28627476 28627476]; doi: [https://dx.doi.org/10.1016/j.bbapap.2017.06.005 10.1016/j.bbapap.2017.06.005]; GPMDB: [http://gpmdb.org/data/keyword/28627476 6]. | ||
+ | #Sung E, Kwon OK, Lee JM, Lee S, (2017) "Proteomics approach to identify novel metastatic bone markers from the secretome of PC-3 prostate cancer cells." <i>Electrophoresis</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28627741 28627741]; doi: [https://dx.doi.org/10.1002/elps.201700052 10.1002/elps.201700052]; GPMDB: [http://gpmdb.org/data/keyword/28627741 2]. | ||
#Loke I, Østergaard O, Heegaard NHH, Packer NH, Thaysen-Andersen M, (2017) "Paucimannose-Rich <i>N</i>-glycosylation of Spatiotemporally Regulated Human Neutrophil Elastase Modulates Its Immune Functions." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28630087 28630087]; doi: [https://dx.doi.org/10.1074/mcp.M116.066746 10.1074/mcp.M116.066746]; GPMDB: [http://gpmdb.org/data/keyword/28630087 118]. | #Loke I, Østergaard O, Heegaard NHH, Packer NH, Thaysen-Andersen M, (2017) "Paucimannose-Rich <i>N</i>-glycosylation of Spatiotemporally Regulated Human Neutrophil Elastase Modulates Its Immune Functions." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28630087 28630087]; doi: [https://dx.doi.org/10.1074/mcp.M116.066746 10.1074/mcp.M116.066746]; GPMDB: [http://gpmdb.org/data/keyword/28630087 118]. | ||
#Feil G, Horres R, Schulte J, Mack AF, Petzoldt S, Arnold C, Meng C, Jost L, Boxleitner J, Kiessling-Wolf N, Serbest E, Helm D, Kuster B, Hartmann I, Korff T, Hahne H, (2017) "Bacterial cellulose shifts transcriptome and proteome of cultured endothelial cells towards native differentiation." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28637836 28637836]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000001 10.1074/mcp.RA117.000001]; GPMDB: [http://gpmdb.org/data/keyword/28637836 2]. | #Feil G, Horres R, Schulte J, Mack AF, Petzoldt S, Arnold C, Meng C, Jost L, Boxleitner J, Kiessling-Wolf N, Serbest E, Helm D, Kuster B, Hartmann I, Korff T, Hahne H, (2017) "Bacterial cellulose shifts transcriptome and proteome of cultured endothelial cells towards native differentiation." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28637836 28637836]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000001 10.1074/mcp.RA117.000001]; GPMDB: [http://gpmdb.org/data/keyword/28637836 2]. | ||
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#Lee HJ, Jedrychowski MP, Vinayagam A, Wu N, Shyh-Chang N, Hu Y, Min-Wen C, Moore JK, Asara JM, Lyssiotis CA, Perrimon N, Gygi SP, Cantley LC, Kirschner MW, (2017) "Proteomic and Metabolomic Characterization of a Mammalian Cellular Transition from Quiescence to Proliferation." <i>Cell Rep</i> <b>20</b>(3):721–736; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28723573 28723573]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.06.074 10.1016/j.celrep.2017.06.074]; GPMDB: [http://gpmdb.org/data/keyword/28723573 2]. | #Lee HJ, Jedrychowski MP, Vinayagam A, Wu N, Shyh-Chang N, Hu Y, Min-Wen C, Moore JK, Asara JM, Lyssiotis CA, Perrimon N, Gygi SP, Cantley LC, Kirschner MW, (2017) "Proteomic and Metabolomic Characterization of a Mammalian Cellular Transition from Quiescence to Proliferation." <i>Cell Rep</i> <b>20</b>(3):721–736; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28723573 28723573]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.06.074 10.1016/j.celrep.2017.06.074]; GPMDB: [http://gpmdb.org/data/keyword/28723573 2]. | ||
#La Barbera G, Capriotti AL, Michelini E, Piovesana S, Calabretta MM, Chiozzi RZ, Roda A, Laganà A, (2017) "Proteomic analysis and bioluminescent reporter gene assays to investigate effects of simulated microgravity on Caco-2 cells." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28727291 28727291]; doi: [https://dx.doi.org/10.1002/pmic.201700081 10.1002/pmic.201700081]; GPMDB: [http://gpmdb.org/data/keyword/28727291 13]. | #La Barbera G, Capriotti AL, Michelini E, Piovesana S, Calabretta MM, Chiozzi RZ, Roda A, Laganà A, (2017) "Proteomic analysis and bioluminescent reporter gene assays to investigate effects of simulated microgravity on Caco-2 cells." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28727291 28727291]; doi: [https://dx.doi.org/10.1002/pmic.201700081 10.1002/pmic.201700081]; GPMDB: [http://gpmdb.org/data/keyword/28727291 13]. | ||
+ | #Mir SA, Renuse S, Sathe G, Khan AA, Patil AH, Nanjappa V, Bhat FA, Prasad TSK, Giri AK, Chatterjee A, Gowda H, (2017) "Altered signaling associated with chronic arsenic exposure in human skin keratinocytes." <i>Proteomics Clin Appl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28731282 28731282]; doi: [https://dx.doi.org/10.1002/prca.201700004 10.1002/prca.201700004]; GPMDB: [http://gpmdb.org/data/keyword/28731282 2]. | ||
+ | #Maffioli E, Nonnis S, Angioni R, Santagata F, Calì B, Zanotti L, Negri A, Viola A, Tedeschi G, (2017) "Proteomic analysis of the secretome of human bone marrow-derived mesenchymal stem cells primed by pro-inflammatory cytokines." <i>J Proteomics</i> <b>166</b>:115–126; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28739509 28739509]; doi: [https://dx.doi.org/10.1016/j.jprot.2017.07.012 10.1016/j.jprot.2017.07.012]; GPMDB: [http://gpmdb.org/data/keyword/28739509 20]. | ||
#Hau AC, Grebbin BM, Agoston Z, Anders-Maurer M, Müller T, Groß A, Kolb J, Langer JD, Döring C, Schulte D, (2017) "MEIS homeodomain proteins facilitate PARP1/ARTD1-mediated eviction of histone H1." <i>J Cell Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28739678 28739678]; doi: [https://dx.doi.org/10.1083/jcb.201701154 10.1083/jcb.201701154]; GPMDB: [http://gpmdb.org/data/keyword/28739678 6]. | #Hau AC, Grebbin BM, Agoston Z, Anders-Maurer M, Müller T, Groß A, Kolb J, Langer JD, Döring C, Schulte D, (2017) "MEIS homeodomain proteins facilitate PARP1/ARTD1-mediated eviction of histone H1." <i>J Cell Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28739678 28739678]; doi: [https://dx.doi.org/10.1083/jcb.201701154 10.1083/jcb.201701154]; GPMDB: [http://gpmdb.org/data/keyword/28739678 6]. | ||
#D'Angelo G, Chaerkady R, Yu W, Hizal DB, Hess S, Zhao W, Lekstrom K, Guo X, White WI, Roskos L, Bowen MA, Yang H, (2017) "Statistical models for the analysis of isobaric tags multiplexed quantitative proteomics." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28745510 28745510]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b01050 10.1021/acs.jproteome.6b01050]; GPMDB: [http://gpmdb.org/data/keyword/28745510 5]. | #D'Angelo G, Chaerkady R, Yu W, Hizal DB, Hess S, Zhao W, Lekstrom K, Guo X, White WI, Roskos L, Bowen MA, Yang H, (2017) "Statistical models for the analysis of isobaric tags multiplexed quantitative proteomics." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28745510 28745510]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b01050 10.1021/acs.jproteome.6b01050]; GPMDB: [http://gpmdb.org/data/keyword/28745510 5]. | ||
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#Zhang X, Chen W, Ning Z, Mayne J, Mack D, Stintzi A, Tian R, Figeys D, (2017) "Deep Metaproteomics Approach for the Study of Human Microbiomes." <i>Anal Chem</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28749657 28749657]; doi: [https://dx.doi.org/10.1021/acs.analchem.7b02224 10.1021/acs.analchem.7b02224]; GPMDB: [http://gpmdb.org/data/keyword/28749657 43]. | #Zhang X, Chen W, Ning Z, Mayne J, Mack D, Stintzi A, Tian R, Figeys D, (2017) "Deep Metaproteomics Approach for the Study of Human Microbiomes." <i>Anal Chem</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28749657 28749657]; doi: [https://dx.doi.org/10.1021/acs.analchem.7b02224 10.1021/acs.analchem.7b02224]; GPMDB: [http://gpmdb.org/data/keyword/28749657 43]. | ||
#Haderk F, Schulz R, Iskar M, Cid LL, Worst T, Willmund KV, Schulz A, Warnken U, Seiler J, Benner A, Nessling M, Zenz T, Göbel M, Dürig J, Diederichs S, Paggetti J, Moussay E, Stilgenbauer S, Zapatka M, Lichter P, Seiffert M, (2017) "Tumor-derived exosomes modulate PD-L1 expression in monocytes." <i>Sci Immunol</i> <b>2</b>(13):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28754746 28754746]; doi: [https://dx.doi.org/10.1126/sciimmunol.aah5509 10.1126/sciimmunol.aah5509]; GPMDB: [http://gpmdb.org/data/keyword/28754746 32]. | #Haderk F, Schulz R, Iskar M, Cid LL, Worst T, Willmund KV, Schulz A, Warnken U, Seiler J, Benner A, Nessling M, Zenz T, Göbel M, Dürig J, Diederichs S, Paggetti J, Moussay E, Stilgenbauer S, Zapatka M, Lichter P, Seiffert M, (2017) "Tumor-derived exosomes modulate PD-L1 expression in monocytes." <i>Sci Immunol</i> <b>2</b>(13):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28754746 28754746]; doi: [https://dx.doi.org/10.1126/sciimmunol.aah5509 10.1126/sciimmunol.aah5509]; GPMDB: [http://gpmdb.org/data/keyword/28754746 32]. | ||
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+ | #Nguyen AT, Prado MA, Schmidt PJ, Sendamarai AK, Wilson-Grady JT, Min M, Campagna DR, Tian G, Shi Y, Dederer V, Kawan M, Kuehnle N, Paulo JA, Yao Y, Weiss MJ, Justice MJ, Gygi SP, Fleming MD, Finley D, (2017) "UBE2O remodels the proteome during terminal erythroid differentiation." <i>Science</i> <b>357</b>(6350):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28774900 28774900]; doi: [https://dx.doi.org/10.1126/science.aan0218 10.1126/science.aan0218]; GPMDB: [http://gpmdb.org/data/keyword/28774900 13]. | ||
+ | #Khan MH, Salomaa SI, Jacquemet G, Butt U, Miihkinen M, Deguchi T, Kremneva E, Lappalainen P, Humphries MJ, Pouwels J, (2017) "The Sharpin interactome reveals a role for Sharpin in lamellipodium formation via the Arp2/3 complex." <i>J Cell Sci</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28775156 28775156]; doi: [https://dx.doi.org/10.1242/jcs.200329 10.1242/jcs.200329]; GPMDB: [http://gpmdb.org/data/keyword/28775156 51]. | ||
+ | #Woo J, Han D, Wang JI, Park J, Kim H, Kim Y, (2017) "Quantitative Proteomics Reveals Temporal Proteomic Changes in Signaling Pathways during BV2 Mouse Microglial Cell Activation." <i>J Proteome Res</i> <b>16</b>(9):3419–3432; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28777000 28777000]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00445 10.1021/acs.jproteome.7b00445]; GPMDB: [http://gpmdb.org/data/keyword/28777000 18]. | ||
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+ | #Dammalli M, Dey G, Madugundu AK, Kumar M, Rodrigues B, Gowda H, Siddaiah BG, Mahadevan A, Shankar SK, Prasad TSK, (2017) "Proteomic Analysis of the Human Olfactory Bulb." <i>OMICS</i> <b>21</b>(8):440–453; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28816642 28816642]; doi: [https://dx.doi.org/10.1089/omi.2017.0084 10.1089/omi.2017.0084]; GPMDB: [http://gpmdb.org/data/keyword/28816642 2]. | ||
+ | #van den Eshof BL, Hoogendijk AJ, Simpson PJ, van Alphen FPJ, Zanivan S, Mertens K, Meijer AB, van den Biggelaar M, (2017) "Paradigm of Biased PAR1 (Protease-Activated Receptor-1) Activation and Inhibition in Endothelial Cells Dissected by Phosphoproteomics." <i>Arterioscler Thromb Vasc Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28818855 28818855]; doi: [https://dx.doi.org/10.1161/ATVBAHA.117.309926 10.1161/ATVBAHA.117.309926]; GPMDB: [http://gpmdb.org/data/keyword/28818855 57]. | ||
+ | #Ayre DC, Chute IC, Joy AP, Barnett DA, Hogan AM, Grüll MP, Peña-Castillo L, Lang AS, Lewis SM, Christian SL, (2017) "CD24 induces changes to the surface receptors of B cell microvesicles with variable effects on their RNA and protein cargo." <i>Sci Rep</i> <b>7</b>(1):8642; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28819186 28819186]; doi: [https://dx.doi.org/10.1038/s41598-017-08094-8 10.1038/s41598-017-08094-8]; GPMDB: [http://gpmdb.org/data/keyword/28819186 146]. | ||
+ | #Hung CL, Pan SH, Han CL, Chang CW, Hsu YL, Su CH, Shih SC, Lai YJ, Chiang Chiau JS, Yeh HI, Liu CY, Lee HC, Lam CSP, (2017) "Membrane Proteomics of Impaired Energetics and Cytoskeletal Disorganization in Elderly Diet-Induced Diabetic Mice." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28823169 28823169]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00148 10.1021/acs.jproteome.7b00148]; GPMDB: [http://gpmdb.org/data/keyword/28823169 14]. | ||
+ | #Fu L, Liu KK, Sun MA, Tian CP, Sun R, Morales Betanzos C, Tallman KA, Porter NA, Yang Y, Guo DJ, Liebler DC, Yang J, (2017) "Systematic and quantitative assessment of hydrogen peroxide reactivity with cysteines across human proteomes." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28827280 28827280]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000108 10.1074/mcp.RA117.000108]; GPMDB: [http://gpmdb.org/data/keyword/28827280 11]. | ||
+ | #Phillips TJ, Scott H, Menassa DA, Bignell AL, Sood A, Morton JS, Akagi T, Azuma K, Rogers MF, Gilmore CE, Inman GJ, Grant S, Chung Y, Aljunaidy MM, Cooke CL, Steinkraus BR, Pocklington A, Logan A, Collett GP, Kemp H, Holmans PA, Murphy MP, Fulga TA, Coney AM, Akashi M, Davidge ST, Case CP, (2017) "Treating the placenta to prevent adverse effects of gestational hypoxia on fetal brain development." <i>Sci Rep</i> <b>7</b>(1):9079; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28831049 28831049]; doi: [https://dx.doi.org/10.1038/s41598-017-06300-1 10.1038/s41598-017-06300-1]; GPMDB: [http://gpmdb.org/data/keyword/28831049 1]. | ||
+ | #Vyse S, McCarthy F, Broncel M, Paul A, Wong JP, Bhamra A, Huang PH, (2017) "Quantitative phosphoproteomic analysis of acquired cancer drug resistance to pazopanib and dasatinib." <i>J Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28842319 28842319]; doi: [https://dx.doi.org/10.1016/j.jprot.2017.08.015 10.1016/j.jprot.2017.08.015]; GPMDB: [http://gpmdb.org/data/keyword/28842319 42]. | ||
+ | #Wildburger NC, Esparza TJ, LeDuc RD, Fellers RT, Thomas PM, Cairns NJ, Kelleher NL, Bateman RJ, Brody DL, (2017) "Diversity of Amyloid-beta Proteoforms in the Alzheimer's Disease Brain." <i>Sci Rep</i> <b>7</b>(1):9520; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28842697 28842697]; doi: [https://dx.doi.org/10.1038/s41598-017-10422-x 10.1038/s41598-017-10422-x]; GPMDB: [http://gpmdb.org/data/keyword/28842697 22]. | ||
+ | #Andersen PR, Tirian L, Vunjak M, Brennecke J, (2017) "A heterochromatin-dependent transcription machinery drives piRNA expression." <i>Nature</i> <b>549</b>(7670):54–59; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28847004 28847004]; doi: [https://dx.doi.org/10.1038/nature23482 10.1038/nature23482]; GPMDB: [http://gpmdb.org/data/keyword/28847004 46]. | ||
+ | #Mohl BP, Emmott E, Roy P, (2017) "Phosphoproteomic analysis reveals the importance of kinase regulation during orbivirus infection." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28851738 28851738]; doi: [https://dx.doi.org/10.1074/mcp.M117.067355 10.1074/mcp.M117.067355]; GPMDB: [http://gpmdb.org/data/keyword/28851738 6]. | ||
+ | #Peng X, Xu F, Liu S, Li S, Huang Q, Chang L, Wang L, Ma X, He F, Xu P, (2017) "Identification of Missing Proteins in the Phosphoproteome of Kidney Cancer." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28857561 28857561]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00332 10.1021/acs.jproteome.7b00332]; GPMDB: [http://gpmdb.org/data/keyword/28857561 17]. | ||
+ | #Subramanian K, Rauniyar N, Lavalleé-Adam M, Yates JR 3rd, Balch WE, (2017) "Quantitative Analysis of the Proteome Response to the Histone Deacetylase Inhibitor (HDACi) Vorinostat in Niemann-Pick Type C1 disease." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28860124 28860124]; doi: [https://dx.doi.org/10.1074/mcp.M116.064949 10.1074/mcp.M116.064949]; GPMDB: [http://gpmdb.org/data/keyword/28860124 7]. | ||
+ | #Rossello J, Lima A, Gil M, Rodríguez Duarte J, Correa A, Carvalho PC, Kierbel A, Durán R, (2017) "The EAL-domain protein FcsR regulates flagella, chemotaxis and type III secretion system in Pseudomonas aeruginosa by a phosphodiesterase independent mechanism." <i>Sci Rep</i> <b>7</b>(1):10281; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28860517 28860517]; doi: [https://dx.doi.org/10.1038/s41598-017-09926-3 10.1038/s41598-017-09926-3]; GPMDB: [http://gpmdb.org/data/keyword/28860517 21]. | ||
+ | #Mendes M, Peláez-García A, López-Lucendo M, Bartolomé RA, Calviño E, Barderas R, Casal JI, (2017) "Mapping the spatial proteome of metastatic cells in colorectal cancer." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28861940 28861940]; doi: [https://dx.doi.org/10.1002/pmic.201700094 10.1002/pmic.201700094]; GPMDB: [http://gpmdb.org/data/keyword/28861940 60]. | ||
+ | #Tanabe Y, Naito Y, Vasuta C, Lee AK, Soumounou Y, Linhoff MW, Takahashi H, (2017) "IgSF21 promotes differentiation of inhibitory synapses via binding to neurexin2α." <i>Nat Commun</i> <b>8</b>(1):408; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28864826 28864826]; doi: [https://dx.doi.org/10.1038/s41467-017-00333-w 10.1038/s41467-017-00333-w]; GPMDB: [http://gpmdb.org/data/keyword/28864826 32]. | ||
+ | #Edupuganti RR, Geiger S, Lindeboom RGH, Shi H, Hsu PJ, Lu Z, Wang SY, Baltissen MPA, Jansen PWTC, Rossa M, Müller M, Stunnenberg HG, He C, Carell T, Vermeulen M, (2017) "N<sup>6</sup>-methyladenosine (m<sup>6</sup>A) recruits and repels proteins to regulate mRNA homeostasis." <i>Nat Struct Mol Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28869609 28869609]; doi: [https://dx.doi.org/10.1038/nsmb.3462 10.1038/nsmb.3462]; GPMDB: [http://gpmdb.org/data/keyword/28869609 32]. | ||
+ | #Kälin S, Becker M, Ott VB, Serr I, Hosp F, Mollah MMH, Keipert S, Lamp D, Rohner-Jeanrenaud F, Flynn VK, Scherm MG, Nascimento LFR, Gerlach K, Popp V, Dietzen S, Bopp T, Krishnamurthy P, Kaplan MH, Serrano M, Woods SC, Tripal P, Palmisano R, Jastroch M, Blüher M, Wolfrum C, Weigmann B, Ziegler AG, Mann M, Tschöp MH, Daniel C, (2017) "A Stat6/Pten Axis Links Regulatory T Cells with Adipose Tissue Function." <i>Cell Metab</i> <b>26</b>(3):475–492.e7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28877454 28877454]; doi: [https://dx.doi.org/10.1016/j.cmet.2017.08.008 10.1016/j.cmet.2017.08.008]; GPMDB: [http://gpmdb.org/data/keyword/28877454 31]. | ||
+ | #Phillips B, Titz B, Kogel U, Sharma D, Leroy P, Xiang Y, Vuillaume G, Lebrun S, Sciuscio D, Ho J, Nury C, Guedj E, Elamin A, Esposito M, Krishnan S, Schlage WK, Veljkovic E, Ivanov NV, Martin F, Peitsch MC, Hoeng J, Vanscheeuwijck P, (2017) "Toxicity of the main electronic cigarette components, propylene glycol, glycerin, and nicotine, in Sprague-Dawley rats in a 90-day OECD inhalation study complemented by molecular endpoints." <i>Food Chem Toxicol</i> <b>109</b>(Pt 1):315–332; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28882640 28882640]; doi: [https://dx.doi.org/10.1016/j.fct.2017.09.001 10.1016/j.fct.2017.09.001]; GPMDB: [http://gpmdb.org/data/keyword/28882640 36]. | ||
+ | #Rijkers M, van den Eshof BL, van der Meer PF, van Alphen FPJ, de Korte D, Leebeek FWG, Meijer AB, Voorberg J, Jansen AJG, (2017) "Monitoring storage induced changes in the platelet proteome employing label free quantitative mass spectrometry." <i>Sci Rep</i> <b>7</b>(1):11045; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28887518 28887518]; doi: [https://dx.doi.org/10.1038/s41598-017-11643-w 10.1038/s41598-017-11643-w]; GPMDB: [http://gpmdb.org/data/keyword/28887518 21]. | ||
+ | #Bachofner M, Speicher T, Bogorad RL, Muzumdar S, Derrer CP, Hürlimann F, Böhm F, Nanni P, Kockmann T, Kachaylo E, Meyer M, Padrissa-Altés S, Graf R, Anderson DG, Koteliansky V, Auf dem Keller U, Werner S, (2017) "Large-Scale Quantitative Proteomics Identifies the Ubiquitin Ligase Nedd4-1 as an Essential Regulator of Liver Regeneration." <i>Dev Cell</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28890072 28890072]; doi: [https://dx.doi.org/10.1016/j.devcel.2017.07.025 10.1016/j.devcel.2017.07.025]; GPMDB: [http://gpmdb.org/data/keyword/28890072 20]. | ||
+ | #Avenarius MR, Krey JF, Dumont RA, Morgan CP, Benson CB, Vijayakumar S, Cunningham CL, Scheffer DI, Corey DP, Müller U, Jones SM, Barr-Gillespie PG, (2017) "Heterodimeric capping protein is required for stereocilia length and width regulation." <i>J Cell Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28899994 28899994]; doi: [https://dx.doi.org/10.1083/jcb.201704171 10.1083/jcb.201704171]; GPMDB: [http://gpmdb.org/data/keyword/28899994 52]. | ||
+ | #Hospital MA, Jacquel A, Mazed F, Saland E, Larrue C, Mondesir J, Birsen R, Green AS, Lambert M, Sujobert P, Gautier EF, Salnot V, Le Gall M, Decroocq J, Poulain L, Jacque N, Fontenay M, Kosmider O, Récher C, Auberger P, Mayeux P, Bouscary D, Sarry JE, Tamburini J, (2017) "RSK2 is a new Pim2 target with pro-survival functions in FLT3-ITD-positive acute myeloid leukemia." <i>Leukemia</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28914261 28914261]; doi: [https://dx.doi.org/10.1038/leu.2017.284 10.1038/leu.2017.284]; GPMDB: [http://gpmdb.org/data/keyword/28914261 3]. | ||
+ | #Tain LS, Sehlke R, Jain C, Chokkalingam M, Nagaraj N, Essers P, Rassner M, Grönke S, Froelich J, Dieterich C, Mann M, Alic N, Beyer A, Partridge L, (2017) "A proteomic atlas of insulin signalling reveals tissue-specific mechanisms of longevity assurance." <i>Mol Syst Biol</i> <b>13</b>(9):939; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28916541 28916541]; GPMDB: [http://gpmdb.org/data/keyword/28916541 92]. |
GPMDB was originally constructed to serve as a reference work for all publicly available proteomics generated using tandem mass spectrometry. Public data is downloaded and reanalyzed using the current version of X! Tandem. The result files generated by the reanalysis and the relevant metadata are imported into the database and made available through the associated web site, ftp site and REST interfaces.
Contents |
The following public data repositories are checked daily for new suitable raw data for reanalysis:
Data made available from specific large projects, such as CPTAC or the Human Proteome Atlas, are also included when they are made available. Every effort is made so that reanalyzed results from all data sources are made available within 48 hours of their being released. In addition, data from lab web sites, ftp sites and direct contributions through the GPM sites made available to researchers are imported into GPMDB as part of a daily incremental update process.
GPMDB has been in operation since Jan. 1, 2004. Several large data source repositories have come into existence and ceased activity in the period since that time. All of the data from those repositories (e.g., TRANCHE, Peptidome) were reanalyzed and stored in GPMDB and they are still available even though the source repository sites are no longer active.
Simply because data is made available does not mean that it will be included in GPMDB. The data must be approved our quality control AI for its initial acceptance and it may be rejected subsequently because of either quality or originality concerns.
The following is a list of data sets with associated PubMed IDs that have supplied data to the GPMDB Project through the data sources mentioned above. The list was current, as of September 24, 2017.