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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. | 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. | ||
+ | |||
+ | <b>CAUTION</b>: Many papers contain serious errors in their Methods sections. When using data from the literature, it is important to be skeptical of any experimental parameter (cell line, tissue type, modification reagents, quantitation methoods, etc.) that may impact on your use of the data. We have tried to correct any obvious errors, but there is no way to guarantee that we found them all. When attempting to analyze or reproduce results, keep in mind the likelyhood that even key parts of the experiment methods may have been recorded incorrectly in the associated manuscript, as methods are rarely reviewed properly in the current journal publication process. | ||
==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 | + | 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 Jan. 22, 2018. |
#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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#Hosp F, Vossfeldt H, Heinig M, Vasiljevic D, Arumughan A, Wyler E, Genetic and Environmental Risk for Alzheimer’s Disease GERAD1 Consortium., Landthaler M, Hubner N, Wanker EE, Lannfelt L, Ingelsson M, Lalowski M, Voigt A, Selbach M, (2015) "Quantitative interaction proteomics of neurodegenerative disease proteins." <i>Cell Rep</i> <b>11</b>(7):1134–46; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25959826 25959826]; doi: [https://dx.doi.org/10.1016/j.celrep.2015.04.030 10.1016/j.celrep.2015.04.030]; GPMDB: [http://gpmdb.org/data/keyword/25959826 122]. | #Hosp F, Vossfeldt H, Heinig M, Vasiljevic D, Arumughan A, Wyler E, Genetic and Environmental Risk for Alzheimer’s Disease GERAD1 Consortium., Landthaler M, Hubner N, Wanker EE, Lannfelt L, Ingelsson M, Lalowski M, Voigt A, Selbach M, (2015) "Quantitative interaction proteomics of neurodegenerative disease proteins." <i>Cell Rep</i> <b>11</b>(7):1134–46; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25959826 25959826]; doi: [https://dx.doi.org/10.1016/j.celrep.2015.04.030 10.1016/j.celrep.2015.04.030]; GPMDB: [http://gpmdb.org/data/keyword/25959826 122]. | ||
#Tay AP, Pang CN, Twine NA, Hart-Smith G, Harkness L, Kassem M, Wilkins MR, (2015) "Proteomic Validation of Transcript Isoforms, Including Those Assembled from RNA-Seq Data." <i>J Proteome Res</i> <b>14</b>(9):3541–54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25961807 25961807]; doi: [https://dx.doi.org/10.1021/pr5011394 10.1021/pr5011394]; GPMDB: [http://gpmdb.org/data/keyword/25961807 77]. | #Tay AP, Pang CN, Twine NA, Hart-Smith G, Harkness L, Kassem M, Wilkins MR, (2015) "Proteomic Validation of Transcript Isoforms, Including Those Assembled from RNA-Seq Data." <i>J Proteome Res</i> <b>14</b>(9):3541–54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25961807 25961807]; doi: [https://dx.doi.org/10.1021/pr5011394 10.1021/pr5011394]; GPMDB: [http://gpmdb.org/data/keyword/25961807 77]. | ||
+ | #Drissi R, Dubois ML, Douziech M, Boisvert FM, (2015) "Quantitative Proteomics Reveals Dynamic Interactions of the Minichromosome Maintenance Complex (MCM) in the Cellular Response to Etoposide Induced DNA Damage." <i>Mol Cell Proteomics</i> <b>14</b>(7):2002–13; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25963833 25963833]; doi: [https://dx.doi.org/10.1074/mcp.M115.048991 10.1074/mcp.M115.048991]; GPMDB: [http://gpmdb.org/data/keyword/25963833 48]. | ||
#Koch H, Busto ME, Kramer K, Médard G, Kuster B, (2015) "Chemical Proteomics Uncovers EPHA2 as a Mechanism of Acquired Resistance to Small Molecule EGFR Kinase Inhibition." <i>J Proteome Res</i> <b>14</b>(6):2617–25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25963923 25963923]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00161 10.1021/acs.jproteome.5b00161]; GPMDB: [http://gpmdb.org/data/keyword/25963923 18]. | #Koch H, Busto ME, Kramer K, Médard G, Kuster B, (2015) "Chemical Proteomics Uncovers EPHA2 as a Mechanism of Acquired Resistance to Small Molecule EGFR Kinase Inhibition." <i>J Proteome Res</i> <b>14</b>(6):2617–25; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25963923 25963923]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00161 10.1021/acs.jproteome.5b00161]; GPMDB: [http://gpmdb.org/data/keyword/25963923 18]. | ||
#Watanabe S, Tan D, Lakshminarasimhan M, Washburn MP, Hong EJ, Walz T, Peterson CL, (2015) "Structural analyses of the chromatin remodelling enzymes INO80-C and SWR-C." <i>Nat Commun</i> <b>6</b>:7108; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25964121 25964121]; doi: [https://dx.doi.org/10.1038/ncomms8108 10.1038/ncomms8108]; GPMDB: [http://gpmdb.org/data/keyword/25964121 2]. | #Watanabe S, Tan D, Lakshminarasimhan M, Washburn MP, Hong EJ, Walz T, Peterson CL, (2015) "Structural analyses of the chromatin remodelling enzymes INO80-C and SWR-C." <i>Nat Commun</i> <b>6</b>:7108; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25964121 25964121]; doi: [https://dx.doi.org/10.1038/ncomms8108 10.1038/ncomms8108]; GPMDB: [http://gpmdb.org/data/keyword/25964121 2]. | ||
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#Mertins P, Mani DR, Ruggles KV, Gillette MA, Clauser KR, Wang P, Wang X, Qiao JW, Cao S, Petralia F, Kawaler E, Mundt F, Krug K, Tu Z, Lei JT, Gatza ML, Wilkerson M, Perou CM, Yellapantula V, Huang KL, Lin C, McLellan MD, Yan P, Davies SR, Townsend RR, Skates SJ, Wang J, Zhang B, Kinsinger CR, Mesri M, Rodriguez H, Ding L, Paulovich AG, Fenyö D, Ellis MJ, Carr SA, NCI CPTAC., (2016) "Proteogenomics connects somatic mutations to signalling in breast cancer." <i>Nature</i> <b>534</b>(7605):55–62; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27251275 27251275]; doi: [https://dx.doi.org/10.1038/nature18003 10.1038/nature18003]; GPMDB: [http://gpmdb.org/data/keyword/27251275 1265]. | #Mertins P, Mani DR, Ruggles KV, Gillette MA, Clauser KR, Wang P, Wang X, Qiao JW, Cao S, Petralia F, Kawaler E, Mundt F, Krug K, Tu Z, Lei JT, Gatza ML, Wilkerson M, Perou CM, Yellapantula V, Huang KL, Lin C, McLellan MD, Yan P, Davies SR, Townsend RR, Skates SJ, Wang J, Zhang B, Kinsinger CR, Mesri M, Rodriguez H, Ding L, Paulovich AG, Fenyö D, Ellis MJ, Carr SA, NCI CPTAC., (2016) "Proteogenomics connects somatic mutations to signalling in breast cancer." <i>Nature</i> <b>534</b>(7605):55–62; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27251275 27251275]; doi: [https://dx.doi.org/10.1038/nature18003 10.1038/nature18003]; GPMDB: [http://gpmdb.org/data/keyword/27251275 1265]. | ||
#Humphrey ES, Su SP, Nagrial AM, Hochgräfe F, Pajic M, Lehrbach GM, Parton RG, Yap AS, Horvath LG, Chang DK, Biankin AV, Wu J, Daly RJ, (2016) "Resolution of Novel Pancreatic Ductal Adenocarcinoma Subtypes by Global Phosphotyrosine Profiling." <i>Mol Cell Proteomics</i> <b>15</b>(8):2671–85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27259358 27259358]; doi: [https://dx.doi.org/10.1074/mcp.M116.058313 10.1074/mcp.M116.058313]; GPMDB: [http://gpmdb.org/data/keyword/27259358 112]. | #Humphrey ES, Su SP, Nagrial AM, Hochgräfe F, Pajic M, Lehrbach GM, Parton RG, Yap AS, Horvath LG, Chang DK, Biankin AV, Wu J, Daly RJ, (2016) "Resolution of Novel Pancreatic Ductal Adenocarcinoma Subtypes by Global Phosphotyrosine Profiling." <i>Mol Cell Proteomics</i> <b>15</b>(8):2671–85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27259358 27259358]; doi: [https://dx.doi.org/10.1074/mcp.M116.058313 10.1074/mcp.M116.058313]; GPMDB: [http://gpmdb.org/data/keyword/27259358 112]. | ||
+ | #Hintermair C, Voß K, Forné I, Heidemann M, Flatley A, Kremmer E, Imhof A, Eick D, (2016) "Specific threonine-4 phosphorylation and function of RNA polymerase II CTD during M phase progression." <i>Sci Rep</i> <b>6</b>:27401; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27264542 27264542]; doi: [https://dx.doi.org/10.1038/srep27401 10.1038/srep27401]; GPMDB: [http://gpmdb.org/data/keyword/27264542 63]. | ||
#Xu L, Gao Y, Chen Y, Xiao Y, He Q, Qiu H, Ge W, (2016) "Quantitative proteomics reveals that distant recurrence-associated protein R-Ras and Transgelin predict post-surgical survival in patients with Stage III colorectal cancer." <i>Oncotarget</i> <b>7</b>(28):43868–43893; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27270312 27270312]; doi: [https://dx.doi.org/10.18632/oncotarget.9701 10.18632/oncotarget.9701]; GPMDB: [http://gpmdb.org/data/keyword/27270312 2]. | #Xu L, Gao Y, Chen Y, Xiao Y, He Q, Qiu H, Ge W, (2016) "Quantitative proteomics reveals that distant recurrence-associated protein R-Ras and Transgelin predict post-surgical survival in patients with Stage III colorectal cancer." <i>Oncotarget</i> <b>7</b>(28):43868–43893; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27270312 27270312]; doi: [https://dx.doi.org/10.18632/oncotarget.9701 10.18632/oncotarget.9701]; GPMDB: [http://gpmdb.org/data/keyword/27270312 2]. | ||
#Gnad F, Doll S, Song K, Stokes MP, Moffat J, Liu B, Arnott D, Wallin J, Friedman LS, Hatzivassiliou G, Belvin M, (2016) "Phosphoproteome analysis of the MAPK pathway reveals previously undetected feedback mechanisms." <i>Proteomics</i> <b>16</b>(14):1998–2004; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27273156 27273156]; doi: [https://dx.doi.org/10.1002/pmic.201600119 10.1002/pmic.201600119]; GPMDB: [http://gpmdb.org/data/keyword/27273156 56]. | #Gnad F, Doll S, Song K, Stokes MP, Moffat J, Liu B, Arnott D, Wallin J, Friedman LS, Hatzivassiliou G, Belvin M, (2016) "Phosphoproteome analysis of the MAPK pathway reveals previously undetected feedback mechanisms." <i>Proteomics</i> <b>16</b>(14):1998–2004; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27273156 27273156]; doi: [https://dx.doi.org/10.1002/pmic.201600119 10.1002/pmic.201600119]; GPMDB: [http://gpmdb.org/data/keyword/27273156 56]. | ||
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#Schanzenbächer CT, Sambandan S, Langer JD, Schuman EM, (2016) "Nascent Proteome Remodeling following Homeostatic Scaling at Hippocampal Synapses." <i>Neuron</i> <b>92</b>(2):358–371; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27764671 27764671]; doi: [https://dx.doi.org/10.1016/j.neuron.2016.09.058 10.1016/j.neuron.2016.09.058]; GPMDB: [http://gpmdb.org/data/keyword/27764671 80]. | #Schanzenbächer CT, Sambandan S, Langer JD, Schuman EM, (2016) "Nascent Proteome Remodeling following Homeostatic Scaling at Hippocampal Synapses." <i>Neuron</i> <b>92</b>(2):358–371; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27764671 27764671]; doi: [https://dx.doi.org/10.1016/j.neuron.2016.09.058 10.1016/j.neuron.2016.09.058]; GPMDB: [http://gpmdb.org/data/keyword/27764671 80]. | ||
#Yu P, Hahne H, Wilhelm M, Kuster B, (2017) "Ethylene glycol improves electrospray ionization efficiency in bottom-up proteomics." <i>Anal Bioanal Chem</i> <b>409</b>(4):1049–1057; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27766361 27766361]; doi: [https://dx.doi.org/10.1007/s00216-016-0023-x 10.1007/s00216-016-0023-x]; GPMDB: [http://gpmdb.org/data/keyword/27766361 147]. | #Yu P, Hahne H, Wilhelm M, Kuster B, (2017) "Ethylene glycol improves electrospray ionization efficiency in bottom-up proteomics." <i>Anal Bioanal Chem</i> <b>409</b>(4):1049–1057; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27766361 27766361]; doi: [https://dx.doi.org/10.1007/s00216-016-0023-x 10.1007/s00216-016-0023-x]; GPMDB: [http://gpmdb.org/data/keyword/27766361 147]. | ||
+ | #Isogai T, van der Kammen R, Bleijerveld OB, Goerdayal SS, Argenzio E, Altelaar AF, Innocenti M, (2016) "Quantitative Proteomics Illuminates a Functional Interaction between mDia2 and the Proteasome." <i>J Proteome Res</i> <b>15</b>(12):4624–4637; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27769112 27769112]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00718 10.1021/acs.jproteome.6b00718]; GPMDB: [http://gpmdb.org/data/keyword/27769112 44]. | ||
#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]. | ||
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#Tahir A, Bileck A, Muqaku B, Niederstaetter L, Kreutz D, Mayer RL, Wolrab D, Meier SM, Slany A, Gerner C, (2017) "Combined Proteome and Eicosanoid Profiling Approach for Revealing Implications of Human Fibroblasts in Chronic Inflammation." <i>Anal Chem</i> <b>89</b>(3):1945–1954; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28208246 28208246]; doi: [https://dx.doi.org/10.1021/acs.analchem.6b04433 10.1021/acs.analchem.6b04433]; GPMDB: [http://gpmdb.org/data/keyword/28208246 32]. | #Tahir A, Bileck A, Muqaku B, Niederstaetter L, Kreutz D, Mayer RL, Wolrab D, Meier SM, Slany A, Gerner C, (2017) "Combined Proteome and Eicosanoid Profiling Approach for Revealing Implications of Human Fibroblasts in Chronic Inflammation." <i>Anal Chem</i> <b>89</b>(3):1945–1954; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28208246 28208246]; doi: [https://dx.doi.org/10.1021/acs.analchem.6b04433 10.1021/acs.analchem.6b04433]; GPMDB: [http://gpmdb.org/data/keyword/28208246 32]. | ||
#Cutler JA, Tahir R, Sreenivasamurthy SK, Mitchell C, Renuse S, Nirujogi RS, Patil AH, Heydarian M, Wong X, Wu X, Huang TC, Kim MS, Reddy KL, Pandey A, (2017) "Differential signaling through p190 and p210 BCR-ABL fusion proteins revealed by interactome and phosphoproteome analysis." <i>Leukemia</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28210003 28210003]; doi: [https://dx.doi.org/10.1038/leu.2017.61 10.1038/leu.2017.61]; GPMDB: [http://gpmdb.org/data/keyword/28210003 20]. | #Cutler JA, Tahir R, Sreenivasamurthy SK, Mitchell C, Renuse S, Nirujogi RS, Patil AH, Heydarian M, Wong X, Wu X, Huang TC, Kim MS, Reddy KL, Pandey A, (2017) "Differential signaling through p190 and p210 BCR-ABL fusion proteins revealed by interactome and phosphoproteome analysis." <i>Leukemia</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28210003 28210003]; doi: [https://dx.doi.org/10.1038/leu.2017.61 10.1038/leu.2017.61]; GPMDB: [http://gpmdb.org/data/keyword/28210003 20]. | ||
+ | #Hartwig T, Montinaro A, von Karstedt S, Sevko A, Surinova S, Chakravarthy A, Taraborrelli L, Draber P, Lafont E, Arce Vargas F, El-Bahrawy MA, Quezada SA, Walczak H, (2017) "The TRAIL-Induced Cancer Secretome Promotes a Tumor-Supportive Immune Microenvironment via CCR2." <i>Mol Cell</i> <b>65</b>(4):730–742.e5; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28212753 28212753]; doi: [https://dx.doi.org/10.1016/j.molcel.2017.01.021 10.1016/j.molcel.2017.01.021]; GPMDB: [http://gpmdb.org/data/keyword/28212753 6]. | ||
#Al Shweiki MR, Mönchgesang S, Majovsky P, Thieme D, Trutschel D, Hoehenwarter W, (2017) "Assessment of Label-Free Quantification in Discovery Proteomics and Impact of Technological Factors and Natural Variability of Protein Abundance." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28217993 28217993]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00645 10.1021/acs.jproteome.6b00645]; GPMDB: [http://gpmdb.org/data/keyword/28217993 54]. | #Al Shweiki MR, Mönchgesang S, Majovsky P, Thieme D, Trutschel D, Hoehenwarter W, (2017) "Assessment of Label-Free Quantification in Discovery Proteomics and Impact of Technological Factors and Natural Variability of Protein Abundance." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28217993 28217993]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00645 10.1021/acs.jproteome.6b00645]; GPMDB: [http://gpmdb.org/data/keyword/28217993 54]. | ||
#Swertfeger DK, Li H, Rebholz S, Zhu X, Shah AS, Davidson WS, Lu LJ, (2017) "Mapping atheroprotective functions and related proteins/lipoproteins in size fractionated human plasma." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28223350 28223350]; doi: [https://dx.doi.org/10.1074/mcp.M116.066290 10.1074/mcp.M116.066290]; GPMDB: [http://gpmdb.org/data/keyword/28223350 180]. | #Swertfeger DK, Li H, Rebholz S, Zhu X, Shah AS, Davidson WS, Lu LJ, (2017) "Mapping atheroprotective functions and related proteins/lipoproteins in size fractionated human plasma." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28223350 28223350]; doi: [https://dx.doi.org/10.1074/mcp.M116.066290 10.1074/mcp.M116.066290]; GPMDB: [http://gpmdb.org/data/keyword/28223350 180]. | ||
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#Hou J, Li Z, Zhong W, Hao Q, Lei L, Wang L, Zhao D, Xu P, Zhou Y, Wang Y, Xu T, (2017) "Temporal Transcriptomic and Proteomic Landscapes of Deteriorating Pancreatic Islets in Type 2 Diabetic Rats." <i>Diabetes</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28559245 28559245]; doi: [https://dx.doi.org/10.2337/db16-1305 10.2337/db16-1305]; GPMDB: [http://gpmdb.org/data/keyword/28559245 12]. | #Hou J, Li Z, Zhong W, Hao Q, Lei L, Wang L, Zhao D, Xu P, Zhou Y, Wang Y, Xu T, (2017) "Temporal Transcriptomic and Proteomic Landscapes of Deteriorating Pancreatic Islets in Type 2 Diabetic Rats." <i>Diabetes</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28559245 28559245]; doi: [https://dx.doi.org/10.2337/db16-1305 10.2337/db16-1305]; GPMDB: [http://gpmdb.org/data/keyword/28559245 12]. | ||
#Sanchez-Quiles V, Akimov V, Osinalde N, Francavilla C, Puglia M, Barrio-Hernandez I, Kratchmarova I, Olsen JV, Blagoev B, (2017) "CYLD deubiquitinase is necessary for proper ubiquitination and degradation of the epidermal growth factor receptor." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28572092 28572092]; doi: [https://dx.doi.org/10.1074/mcp.M116.066423 10.1074/mcp.M116.066423]; GPMDB: [http://gpmdb.org/data/keyword/28572092 108]. | #Sanchez-Quiles V, Akimov V, Osinalde N, Francavilla C, Puglia M, Barrio-Hernandez I, Kratchmarova I, Olsen JV, Blagoev B, (2017) "CYLD deubiquitinase is necessary for proper ubiquitination and degradation of the epidermal growth factor receptor." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28572092 28572092]; doi: [https://dx.doi.org/10.1074/mcp.M116.066423 10.1074/mcp.M116.066423]; GPMDB: [http://gpmdb.org/data/keyword/28572092 108]. | ||
+ | #Bj Rås KØ, Sousa MML, Sharma A, Fonseca DM, S Gaard CK, Bj Rås M, Otterlei M, (2017) "Monitoring of the spatial and temporal dynamics of BER/SSBR pathway proteins, including MYH, UNG2, MPG, NTH1 and NEIL1-3, during DNA replication." <i>Nucleic Acids Res</i> <b>45</b>(14):8291–8301; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28575236 28575236]; doi: [https://dx.doi.org/10.1093/nar/gkx476 10.1093/nar/gkx476]; GPMDB: [http://gpmdb.org/data/keyword/28575236 31]. | ||
#Obermann J, Priglinger CS, Merl-Pham J, Geerlof A, Priglinger S, Götz M, Hauck SM, (2017) "Proteome-wide identification of glycosylation-dependent interactors of Galectin-1 and Galectin-3 on mesenchymal retinal pigment epithelial cells." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28576849 28576849]; doi: [https://dx.doi.org/10.1074/mcp.M116.066381 10.1074/mcp.M116.066381]; GPMDB: [http://gpmdb.org/data/keyword/28576849 193]. | #Obermann J, Priglinger CS, Merl-Pham J, Geerlof A, Priglinger S, Götz M, Hauck SM, (2017) "Proteome-wide identification of glycosylation-dependent interactors of Galectin-1 and Galectin-3 on mesenchymal retinal pigment epithelial cells." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28576849 28576849]; doi: [https://dx.doi.org/10.1074/mcp.M116.066381 10.1074/mcp.M116.066381]; GPMDB: [http://gpmdb.org/data/keyword/28576849 193]. | ||
#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]. | ||
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#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]. | #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]. | ||
+ | #Haas TL, Sciuto MR, Brunetto L, Valvo C, Signore M, Fiori ME, di Martino S, Giannetti S, Morgante L, Boe A, Patrizii M, Warnken U, Schnölzer M, Ciolfi A, Di Stefano C, Biffoni M, Ricci-Vitiani L, Pallini R, De Maria R, (2017) "Integrin α7 Is a Functional Marker and Potential Therapeutic Target in Glioblastoma." <i>Cell Stem Cell</i> <b>21</b>(1):35–50.e9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28602620 28602620]; doi: [https://dx.doi.org/10.1016/j.stem.2017.04.009 10.1016/j.stem.2017.04.009]; GPMDB: [http://gpmdb.org/data/keyword/28602620 3]. | ||
#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]. | ||
#Brocard L, Immel F, Coulon D, Esnay N, Tuphile K, Pascal S, Claverol S, Fouillen L, Bessoule JJ, Bréhélin C, (2017) "Proteomic Analysis of Lipid Droplets from Arabidopsis Aging Leaves Brings New Insight into Their Biogenesis and Functions." <i>Front Plant Sci</i> <b>8</b>:894; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28611809 28611809]; doi: [https://dx.doi.org/10.3389/fpls.2017.00894 10.3389/fpls.2017.00894]; GPMDB: [http://gpmdb.org/data/keyword/28611809 3]. | #Brocard L, Immel F, Coulon D, Esnay N, Tuphile K, Pascal S, Claverol S, Fouillen L, Bessoule JJ, Bréhélin C, (2017) "Proteomic Analysis of Lipid Droplets from Arabidopsis Aging Leaves Brings New Insight into Their Biogenesis and Functions." <i>Front Plant Sci</i> <b>8</b>:894; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28611809 28611809]; doi: [https://dx.doi.org/10.3389/fpls.2017.00894 10.3389/fpls.2017.00894]; GPMDB: [http://gpmdb.org/data/keyword/28611809 3]. | ||
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#Flury V, Georgescu PR, Iesmantavicius V, Shimada Y, Kuzdere T, Braun S, Bühler M, (2017) "The Histone Acetyltransferase Mst2 Protects Active Chromatin from Epigenetic Silencing by Acetylating the Ubiquitin Ligase Brl1." <i>Mol Cell</i> <b>67</b>(2):294–307.e9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28648780 28648780]; doi: [https://dx.doi.org/10.1016/j.molcel.2017.05.026 10.1016/j.molcel.2017.05.026]; GPMDB: [http://gpmdb.org/data/keyword/28648780 50]. | #Flury V, Georgescu PR, Iesmantavicius V, Shimada Y, Kuzdere T, Braun S, Bühler M, (2017) "The Histone Acetyltransferase Mst2 Protects Active Chromatin from Epigenetic Silencing by Acetylating the Ubiquitin Ligase Brl1." <i>Mol Cell</i> <b>67</b>(2):294–307.e9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28648780 28648780]; doi: [https://dx.doi.org/10.1016/j.molcel.2017.05.026 10.1016/j.molcel.2017.05.026]; GPMDB: [http://gpmdb.org/data/keyword/28648780 50]. | ||
#Morgenstern M, Stiller SB, Lübbert P, Peikert CD, Dannenmaier S, Drepper F, Weill U, Höß P, Feuerstein R, Gebert M, Bohnert M, van der Laan M, Schuldiner M, Schütze C, Oeljeklaus S, Pfanner N, Wiedemann N, Warscheid B, (2017) "Definition of a High-Confidence Mitochondrial Proteome at Quantitative Scale." <i>Cell Rep</i> <b>19</b>(13):2836–2852; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28658629 28658629]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.06.014 10.1016/j.celrep.2017.06.014]; GPMDB: [http://gpmdb.org/data/keyword/28658629 697]. | #Morgenstern M, Stiller SB, Lübbert P, Peikert CD, Dannenmaier S, Drepper F, Weill U, Höß P, Feuerstein R, Gebert M, Bohnert M, van der Laan M, Schuldiner M, Schütze C, Oeljeklaus S, Pfanner N, Wiedemann N, Warscheid B, (2017) "Definition of a High-Confidence Mitochondrial Proteome at Quantitative Scale." <i>Cell Rep</i> <b>19</b>(13):2836–2852; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28658629 28658629]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.06.014 10.1016/j.celrep.2017.06.014]; GPMDB: [http://gpmdb.org/data/keyword/28658629 697]. | ||
+ | #Offenburger SL, Bensaddek D, Murillo AB, Lamond AI, Gartner A, (2017) "Comparative genetic, proteomic and phosphoproteomic analysis of C. elegans embryos with a focus on ham-1/STOX and pig-1/MELK in dopaminergic neuron development." <i>Sci Rep</i> <b>7</b>(1):4314; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28659600 28659600]; doi: [https://dx.doi.org/10.1038/s41598-017-04375-4 10.1038/s41598-017-04375-4]; GPMDB: [http://gpmdb.org/data/keyword/28659600 289]. | ||
#Govaert E, Van Steendam K, Willems S, Vossaert L, Dhaenens M, Deforce D, (2017) "Comparison of fractionation proteomics for local SWATH library building." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28664598 28664598]; doi: [https://dx.doi.org/10.1002/pmic.201700052 10.1002/pmic.201700052]; GPMDB: [http://gpmdb.org/data/keyword/28664598 4]. | #Govaert E, Van Steendam K, Willems S, Vossaert L, Dhaenens M, Deforce D, (2017) "Comparison of fractionation proteomics for local SWATH library building." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28664598 28664598]; doi: [https://dx.doi.org/10.1002/pmic.201700052 10.1002/pmic.201700052]; GPMDB: [http://gpmdb.org/data/keyword/28664598 4]. | ||
#Sap KA, Bezstarosti K, Dekkers DHW, Voets O, Demmers JAA, (2017) "Quantitative Proteomics Reveals Extensive Changes in the Ubiquitinome after Perturbation of the Proteasome by Targeted dsRNA-Mediated Subunit Knockdown in Drosophila." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28665616 28665616]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00156 10.1021/acs.jproteome.7b00156]; GPMDB: [http://gpmdb.org/data/keyword/28665616 290]. | #Sap KA, Bezstarosti K, Dekkers DHW, Voets O, Demmers JAA, (2017) "Quantitative Proteomics Reveals Extensive Changes in the Ubiquitinome after Perturbation of the Proteasome by Targeted dsRNA-Mediated Subunit Knockdown in Drosophila." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28665616 28665616]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00156 10.1021/acs.jproteome.7b00156]; GPMDB: [http://gpmdb.org/data/keyword/28665616 290]. | ||
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#Panizza E, Branca RMM, Oliviusson P, Orre LM, Lehtiö J, (2017) "Isoelectric point-based fractionation by HiRIEF coupled to LC-MS allows for in-depth quantitative analysis of the phosphoproteome." <i>Sci Rep</i> <b>7</b>(1):4513; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28674419 28674419]; doi: [https://dx.doi.org/10.1038/s41598-017-04798-z 10.1038/s41598-017-04798-z]; GPMDB: [http://gpmdb.org/data/keyword/28674419 133]. | #Panizza E, Branca RMM, Oliviusson P, Orre LM, Lehtiö J, (2017) "Isoelectric point-based fractionation by HiRIEF coupled to LC-MS allows for in-depth quantitative analysis of the phosphoproteome." <i>Sci Rep</i> <b>7</b>(1):4513; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28674419 28674419]; doi: [https://dx.doi.org/10.1038/s41598-017-04798-z 10.1038/s41598-017-04798-z]; GPMDB: [http://gpmdb.org/data/keyword/28674419 133]. | ||
#Yang J, Yin L, Lessner FH, Nakayasu ES, Payne SH, Fixen KR, Gallagher L, Harwood CS, (2017) "Genes essential for phototrophic growth by a purple alphaproteobacterium." <i>Environ Microbiol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28677146 28677146]; doi: [https://dx.doi.org/10.1111/1462-2920.13852 10.1111/1462-2920.13852]; GPMDB: [http://gpmdb.org/data/keyword/28677146 6]. | #Yang J, Yin L, Lessner FH, Nakayasu ES, Payne SH, Fixen KR, Gallagher L, Harwood CS, (2017) "Genes essential for phototrophic growth by a purple alphaproteobacterium." <i>Environ Microbiol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28677146 28677146]; doi: [https://dx.doi.org/10.1111/1462-2920.13852 10.1111/1462-2920.13852]; GPMDB: [http://gpmdb.org/data/keyword/28677146 6]. | ||
+ | #Soman KV, Stafford SJ, Pazdrak K, Wu Z, Luo X, White WI, Wiktorowicz JE, Calhoun WJ, Kurosky A, (2017) "Activation of Human Peripheral Blood Eosinophils by Cytokines in a Comparative Time-Course Proteomic/Phosphoproteomic Study." <i>J Proteome Res</i> <b>16</b>(8):2663–2679; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28679203 28679203]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00367 10.1021/acs.jproteome.6b00367]; GPMDB: [http://gpmdb.org/data/keyword/28679203 47]. | ||
#Miikkulainen P, Högel H, Rantanen K, Suomi T, Kouvonen P, Elo LL, Jaakkola PM, (2017) "HIF prolyl hydroxylase PHD3 regulates translational machinery and glucose metabolism in clear cell renal cell carcinoma." <i>Cancer Metab</i> <b>5</b>:5; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28680592 28680592]; doi: [https://dx.doi.org/10.1186/s40170-017-0167-y 10.1186/s40170-017-0167-y]; GPMDB: [http://gpmdb.org/data/keyword/28680592 12]. | #Miikkulainen P, Högel H, Rantanen K, Suomi T, Kouvonen P, Elo LL, Jaakkola PM, (2017) "HIF prolyl hydroxylase PHD3 regulates translational machinery and glucose metabolism in clear cell renal cell carcinoma." <i>Cancer Metab</i> <b>5</b>:5; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28680592 28680592]; doi: [https://dx.doi.org/10.1186/s40170-017-0167-y 10.1186/s40170-017-0167-y]; GPMDB: [http://gpmdb.org/data/keyword/28680592 12]. | ||
#Zwittink RD, van Zoeren-Grobben D, Martin R, van Lingen RA, Groot Jebbink LJ, Boeren S, Renes IB, van Elburg RM, Belzer C, Knol J, (2017) "Metaproteomics reveals functional differences in intestinal microbiota development of preterm infants." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28684633 28684633]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000102 10.1074/mcp.RA117.000102]; GPMDB: [http://gpmdb.org/data/keyword/28684633 65]. | #Zwittink RD, van Zoeren-Grobben D, Martin R, van Lingen RA, Groot Jebbink LJ, Boeren S, Renes IB, van Elburg RM, Belzer C, Knol J, (2017) "Metaproteomics reveals functional differences in intestinal microbiota development of preterm infants." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28684633 28684633]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000102 10.1074/mcp.RA117.000102]; GPMDB: [http://gpmdb.org/data/keyword/28684633 65]. | ||
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#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]. | #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]. | ||
+ | #Girardi T, Vereecke S, Sulima SO, Khan Y, Fancello L, Briggs JW, Schwab C, de Beeck JO, Verbeeck J, Royaert J, Geerdens E, Vicente C, Bornschein S, Harrison CJ, Meijerink JP, Cools J, Dinman JD, Kampen KR, De Keersmaecker K, (2017) "The T-cell leukemia-associated ribosomal RPL10 R98S mutation enhances JAK-STAT signaling." <i>Leukemia</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28744013 28744013]; doi: [https://dx.doi.org/10.1038/leu.2017.225 10.1038/leu.2017.225]; GPMDB: [http://gpmdb.org/data/keyword/28744013 36]. | ||
#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]. | ||
#Komor MA, Pham T, Hiemstra AC, Piersma SR, Bolijn AS, Schelfhorst T, Delis-van Diemen PM, Tijssen M, Sebra RP, Ashby M, Meijer GA, Jimenez CR, Fijneman RJA, (2017) "Identification of differentially expressed splice variants by the proteogenomic pipeline Splicify." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28747380 28747380]; doi: [https://dx.doi.org/10.1074/mcp.TIR117.000056 10.1074/mcp.TIR117.000056]; GPMDB: [http://gpmdb.org/data/keyword/28747380 14]. | #Komor MA, Pham T, Hiemstra AC, Piersma SR, Bolijn AS, Schelfhorst T, Delis-van Diemen PM, Tijssen M, Sebra RP, Ashby M, Meijer GA, Jimenez CR, Fijneman RJA, (2017) "Identification of differentially expressed splice variants by the proteogenomic pipeline Splicify." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28747380 28747380]; doi: [https://dx.doi.org/10.1074/mcp.TIR117.000056 10.1074/mcp.TIR117.000056]; GPMDB: [http://gpmdb.org/data/keyword/28747380 14]. | ||
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#Dittus L, Werner T, Muelbaier M, Bantscheff M, (2017) "Differential Kinobeads Profiling for Target Identification of Irreversible Kinase Inhibitors." <i>ACS Chem Biol</i> <b>12</b>(10):2515–2521; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28876896 28876896]; doi: [https://dx.doi.org/10.1021/acschembio.7b00617 10.1021/acschembio.7b00617]; GPMDB: [http://gpmdb.org/data/keyword/28876896 154]. | #Dittus L, Werner T, Muelbaier M, Bantscheff M, (2017) "Differential Kinobeads Profiling for Target Identification of Irreversible Kinase Inhibitors." <i>ACS Chem Biol</i> <b>12</b>(10):2515–2521; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28876896 28876896]; doi: [https://dx.doi.org/10.1021/acschembio.7b00617 10.1021/acschembio.7b00617]; GPMDB: [http://gpmdb.org/data/keyword/28876896 154]. | ||
#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]. | #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]. | ||
+ | #Chen TW, Lee CC, Liu H, Wu CS, Pickering CR, Huang PJ, Wang J, Chang IY, Yeh YM, Chen CD, Li HP, Luo JD, Tan BC, Chan TEH, Hsueh C, Chu LJ, Chen YT, Zhang B, Yang CY, Wu CC, Hsu CW, See LC, Tang P, Yu JS, Liao WC, Chiang WF, Rodriguez H, Myers JN, Chang KP, Chang YS, (2017) "APOBEC3A is an oral cancer prognostic biomarker in Taiwanese carriers of an APOBEC deletion polymorphism." <i>Nat Commun</i> <b>8</b>(1):465; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28878238 28878238]; doi: [https://dx.doi.org/10.1038/s41467-017-00493-9 10.1038/s41467-017-00493-9]; GPMDB: [http://gpmdb.org/data/keyword/28878238 18]. | ||
#Han B, Fang Y, Feng M, Hu H, Hao Y, Ma C, Huo X, Meng L, Zhang X, Wu F, Li J, (2017) "Brain Membrane Proteome and Phosphoproteome Reveal Molecular Basis Associating with Nursing and Foraging Behaviors of Honeybee Workers." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28879772 28879772]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00371 10.1021/acs.jproteome.7b00371]; GPMDB: [http://gpmdb.org/data/keyword/28879772 47]. | #Han B, Fang Y, Feng M, Hu H, Hao Y, Ma C, Huo X, Meng L, Zhang X, Wu F, Li J, (2017) "Brain Membrane Proteome and Phosphoproteome Reveal Molecular Basis Associating with Nursing and Foraging Behaviors of Honeybee Workers." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28879772 28879772]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00371 10.1021/acs.jproteome.7b00371]; GPMDB: [http://gpmdb.org/data/keyword/28879772 47]. | ||
#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]. | #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]. | ||
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#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 17]. | #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 17]. | ||
#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]. | #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]. | ||
+ | #Martin-Perez M, Villén J, (2017) "Determinants and Regulation of Protein Turnover in Yeast." <i>Cell Syst</i> <b>5</b>(3):283–294.e5; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28918244 28918244]; doi: [https://dx.doi.org/10.1016/j.cels.2017.08.008 10.1016/j.cels.2017.08.008]; GPMDB: [http://gpmdb.org/data/keyword/28918244 12]. | ||
#Weber A, Elliott PR, Pinto-Fernandez A, Bonham S, Kessler BM, Komander D, El Oualid F, Krappmann D, (2017) "A Linear Diubiquitin-Based Probe for Efficient and Selective Detection of the Deubiquitinating Enzyme OTULIN." <i>Cell Chem Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28919039 28919039]; doi: [https://dx.doi.org/10.1016/j.chembiol.2017.08.006 10.1016/j.chembiol.2017.08.006]; GPMDB: [http://gpmdb.org/data/keyword/28919039 16]. | #Weber A, Elliott PR, Pinto-Fernandez A, Bonham S, Kessler BM, Komander D, El Oualid F, Krappmann D, (2017) "A Linear Diubiquitin-Based Probe for Efficient and Selective Detection of the Deubiquitinating Enzyme OTULIN." <i>Cell Chem Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28919039 28919039]; doi: [https://dx.doi.org/10.1016/j.chembiol.2017.08.006 10.1016/j.chembiol.2017.08.006]; GPMDB: [http://gpmdb.org/data/keyword/28919039 16]. | ||
#Kuboniwa M, Houser JR, Hendrickson EL, Wang Q, Alghamdi SA, Sakanaka A, Miller DP, Hutcherson JA, Wang T, Beck DAC, Whiteley M, Amano A, Wang H, Marcotte EM, Hackett M, Lamont RJ, (2017) "Metabolic crosstalk regulates Porphyromonas gingivalis colonization and virulence during oral polymicrobial infection." <i>Nat Microbiol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28924191 28924191]; doi: [https://dx.doi.org/10.1038/s41564-017-0021-6 10.1038/s41564-017-0021-6]; GPMDB: [http://gpmdb.org/data/keyword/28924191 15]. | #Kuboniwa M, Houser JR, Hendrickson EL, Wang Q, Alghamdi SA, Sakanaka A, Miller DP, Hutcherson JA, Wang T, Beck DAC, Whiteley M, Amano A, Wang H, Marcotte EM, Hackett M, Lamont RJ, (2017) "Metabolic crosstalk regulates Porphyromonas gingivalis colonization and virulence during oral polymicrobial infection." <i>Nat Microbiol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28924191 28924191]; doi: [https://dx.doi.org/10.1038/s41564-017-0021-6 10.1038/s41564-017-0021-6]; GPMDB: [http://gpmdb.org/data/keyword/28924191 15]. | ||
+ | #Liao Y, Weber D, Xu W, Durbin-Johnson BP, Phinney BS, Lönnerdal B, (2017) "Absolute Quantification of Human Milk Caseins and the Whey/Casein Ratio during the First Year of Lactation." <i>J Proteome Res</i> <b>16</b>(11):4113–4121; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28925267 28925267]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00486 10.1021/acs.jproteome.7b00486]; GPMDB: [http://gpmdb.org/data/keyword/28925267 93]. | ||
#Lum KM, Sato Y, Beyer BA, Plaisted WC, Anglin JL, Lairson LL, Cravatt BF, (2017) "Mapping Protein Targets of Bioactive Small Molecules Using Lipid-Based Chemical Proteomics." <i>ACS Chem Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28930429 28930429]; doi: [https://dx.doi.org/10.1021/acschembio.7b00581 10.1021/acschembio.7b00581]; GPMDB: [http://gpmdb.org/data/keyword/28930429 43]. | #Lum KM, Sato Y, Beyer BA, Plaisted WC, Anglin JL, Lairson LL, Cravatt BF, (2017) "Mapping Protein Targets of Bioactive Small Molecules Using Lipid-Based Chemical Proteomics." <i>ACS Chem Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28930429 28930429]; doi: [https://dx.doi.org/10.1021/acschembio.7b00581 10.1021/acschembio.7b00581]; GPMDB: [http://gpmdb.org/data/keyword/28930429 43]. | ||
#Whiteley AM, Prado MA, Peng I, Abbas AR, Haley B, Paulo JA, Reichelt M, Katakam A, Sagolla M, Modrusan Z, Lee DY, Roose-Girma M, Kirkpatrick DS, McKenzie BS, Gygi SP, Finley D, Brown EJ, (2017) "Ubiquilin1 promotes antigen-receptor mediated proliferation by eliminating mislocalized mitochondrial proteins." <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28933694 28933694]; doi: [https://dx.doi.org/10.7554/eLife.26435 10.7554/eLife.26435]; GPMDB: [http://gpmdb.org/data/keyword/28933694 4]. | #Whiteley AM, Prado MA, Peng I, Abbas AR, Haley B, Paulo JA, Reichelt M, Katakam A, Sagolla M, Modrusan Z, Lee DY, Roose-Girma M, Kirkpatrick DS, McKenzie BS, Gygi SP, Finley D, Brown EJ, (2017) "Ubiquilin1 promotes antigen-receptor mediated proliferation by eliminating mislocalized mitochondrial proteins." <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28933694 28933694]; doi: [https://dx.doi.org/10.7554/eLife.26435 10.7554/eLife.26435]; GPMDB: [http://gpmdb.org/data/keyword/28933694 4]. | ||
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#Zhang W, Chen X, Yan Z, Chen Y, Cui Y, Chen B, Huang C, Zhang W, Yin X, He QY, He F, Wang T, (2017) "Detergent-insoluble proteome analysis revealed aberrantly aggregated proteins in human preeclampsia placentas." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28965414 28965414]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00352 10.1021/acs.jproteome.7b00352]; GPMDB: [http://gpmdb.org/data/keyword/28965414 4]. | #Zhang W, Chen X, Yan Z, Chen Y, Cui Y, Chen B, Huang C, Zhang W, Yin X, He QY, He F, Wang T, (2017) "Detergent-insoluble proteome analysis revealed aberrantly aggregated proteins in human preeclampsia placentas." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28965414 28965414]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00352 10.1021/acs.jproteome.7b00352]; GPMDB: [http://gpmdb.org/data/keyword/28965414 4]. | ||
#Reyes ED, Kulej K, Pancholi NJ, Akhtar LN, Avgousti DC, Kim ET, Bricker DK, Spruce LA, Koniski SA, Seeholzer SH, Isaacs SN, Garcia BA, Weitzman MD, (2017) "Identifying host factors associated with DNA replicated during virus infection." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28972080 28972080]; doi: [https://dx.doi.org/10.1074/mcp.M117.067116 10.1074/mcp.M117.067116]; GPMDB: [http://gpmdb.org/data/keyword/28972080 164]. | #Reyes ED, Kulej K, Pancholi NJ, Akhtar LN, Avgousti DC, Kim ET, Bricker DK, Spruce LA, Koniski SA, Seeholzer SH, Isaacs SN, Garcia BA, Weitzman MD, (2017) "Identifying host factors associated with DNA replicated during virus infection." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28972080 28972080]; doi: [https://dx.doi.org/10.1074/mcp.M117.067116 10.1074/mcp.M117.067116]; GPMDB: [http://gpmdb.org/data/keyword/28972080 164]. | ||
+ | #Isobe K, Jung HJ, Yang CR, Claxton J, Sandoval P, Burg MB, Raghuram V, Knepper MA, (2017) "Systems-level identification of PKA-dependent signaling in epithelial cells." <i>Proc Natl Acad Sci U S A</i> <b>114</b>(42):E8875–E8884; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28973931 28973931]; doi: [https://dx.doi.org/10.1073/pnas.1709123114 10.1073/pnas.1709123114]; GPMDB: [http://gpmdb.org/data/keyword/28973931 75]. | ||
#Kollipara L, Buchkremer S, Coraspe JAG, Hathazi D, Senderek J, Weis J, Zahedi RP, Roos A, (2017) "In-depth phenotyping of lymphoblastoid cells suggests selective cellular vulnerability in Marinesco-Sjögren syndrome." <i>Oncotarget</i> <b>8</b>(40):68493–68516; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28978133 28978133]; doi: [https://dx.doi.org/10.18632/oncotarget.19663 10.18632/oncotarget.19663]; GPMDB: [http://gpmdb.org/data/keyword/28978133 23]. | #Kollipara L, Buchkremer S, Coraspe JAG, Hathazi D, Senderek J, Weis J, Zahedi RP, Roos A, (2017) "In-depth phenotyping of lymphoblastoid cells suggests selective cellular vulnerability in Marinesco-Sjögren syndrome." <i>Oncotarget</i> <b>8</b>(40):68493–68516; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28978133 28978133]; doi: [https://dx.doi.org/10.18632/oncotarget.19663 10.18632/oncotarget.19663]; GPMDB: [http://gpmdb.org/data/keyword/28978133 23]. | ||
#Opitz N, Schmitt K, Hofer-Pretz V, Neumann B, Krebber H, Braus GH, Valerius O, (2017) "Capturing the Asc1p/RACK1 microenvironment at the head region of the 40S ribosome with quantitative BioID in yeast." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28982715 28982715]; doi: [https://dx.doi.org/10.1074/mcp.M116.066654 10.1074/mcp.M116.066654]; GPMDB: [http://gpmdb.org/data/keyword/28982715 268]. | #Opitz N, Schmitt K, Hofer-Pretz V, Neumann B, Krebber H, Braus GH, Valerius O, (2017) "Capturing the Asc1p/RACK1 microenvironment at the head region of the 40S ribosome with quantitative BioID in yeast." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28982715 28982715]; doi: [https://dx.doi.org/10.1074/mcp.M116.066654 10.1074/mcp.M116.066654]; GPMDB: [http://gpmdb.org/data/keyword/28982715 268]. | ||
+ | #Parker BL, Burchfield JG, Clayton D, Geddes TA, Payne RJ, Kiens B, Wojtaszewski J, Richter EA, James DE, (2017) "Multiplexed temporal quantification of the exercise-regulated plasma peptidome." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28982716 28982716]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000020 10.1074/mcp.RA117.000020]; GPMDB: [http://gpmdb.org/data/keyword/28982716 12]. | ||
+ | #Berger CN, Crepin VF, Roumeliotis TI, Wright JC, Carson D, Pevsner-Fischer M, Furniss RCD, Dougan G, Dori-Bachash M, Yu L, Clements A, Collins JW, Elinav E, Larrouy-Maumus GJ, Choudhary JS, Frankel G, (2017) "Citrobacter rodentium Subverts ATP Flux and Cholesterol Homeostasis in Intestinal Epithelial Cells In Vivo." <i>Cell Metab</i> <b>26</b>(5):738–752.e6; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28988824 28988824]; doi: [https://dx.doi.org/10.1016/j.cmet.2017.09.003 10.1016/j.cmet.2017.09.003]; GPMDB: [http://gpmdb.org/data/keyword/28988824 24]. | ||
+ | #Novikova SE, Tikhonova OV, Kurbatov LK, Farafonova TE, Vakhrushev IV, Zgoda VG, (2017) "Application of selected reaction monitoring and parallel reaction monitoring for investigation of HL-60 cell line differentiation." <i>Eur J Mass Spectrom (Chichester)</i> <b>23</b>(4):202–208; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29028392 29028392]; doi: [https://dx.doi.org/10.1177/1469066717719848 10.1177/1469066717719848]; GPMDB: [http://gpmdb.org/data/keyword/29028392 25]. | ||
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+ | #Stewart NA, Gerlach RF, Gowland RL, Gron KJ, Montgomery J, (2017) "Sex determination of human remains from peptides in tooth enamel." <i>Proc Natl Acad Sci U S A</i> <b>114</b>(52):13649–13654; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29229823 29229823]; doi: [https://dx.doi.org/10.1073/pnas.1714926115 10.1073/pnas.1714926115]; GPMDB: [http://gpmdb.org/data/keyword/29229823 13]. | ||
+ | #Bizzotto S, Uzquiano A, Dingli F, Ershov D, Houllier A, Arras G, Richards M, Loew D, Minc N, Croquelois A, Houdusse A, Francis F, (2017) "Eml1 loss impairs apical progenitor spindle length and soma shape in the developing cerebral cortex." <i>Sci Rep</i> <b>7</b>(1):17308; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29229923 29229923]; doi: [https://dx.doi.org/10.1038/s41598-017-15253-4 10.1038/s41598-017-15253-4]; GPMDB: [http://gpmdb.org/data/keyword/29229923 28]. | ||
+ | #Alli-Shaik A, Wee S, Lim LHK, Gunaratne J, (2017) "Phosphoproteomics reveals network rewiring to a pro-adhesion state in annexin-1-deficient mammary epithelial cells." <i>Breast Cancer Res</i> <b>19</b>(1):132; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29233185 29233185]; doi: [https://dx.doi.org/10.1186/s13058-017-0924-4 10.1186/s13058-017-0924-4]; GPMDB: [http://gpmdb.org/data/keyword/29233185 263]. | ||
+ | #Chong C, Marino F, Pak HS, Racle J, Daniel RT, Müller M, Gfeller D, Coukos G, Bassani-Sternberg M, (2017) "High-throughput and sensitive immunopeptidomics platform reveals profound IFNγ-mediated remodeling of the HLA ligandome." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29242379 29242379]; doi: [https://dx.doi.org/10.1074/mcp.TIR117.000383 10.1074/mcp.TIR117.000383]; GPMDB: [http://gpmdb.org/data/keyword/29242379 121]. | ||
+ | #Müller AK, Föll M, Heckelmann B, Kiefer S, Werner M, Schilling O, Biniossek ML, Jilg CA, Drendel V, (2017) "Proteomic Characterization of Prostate Cancer to Distinguish Nonmetastasizing and Metastasizing Primary Tumors and Lymph Node Metastases." <i>Neoplasia</i> <b>20</b>(2):140–151; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29248718 29248718]; doi: [https://dx.doi.org/10.1016/j.neo.2017.10.009 10.1016/j.neo.2017.10.009]; GPMDB: [http://gpmdb.org/data/keyword/29248718 15]. | ||
+ | #Krogager TP, Ernst RJ, Elliott TS, Calo L, Beránek V, Ciabatti E, Spillantini MG, Tripodi M, Hastings MH, Chin JW, (2017) "Labeling and identifying cell-specific proteomes in the mouse brain." <i>Nat Biotechnol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29251727 29251727]; doi: [https://dx.doi.org/10.1038/nbt.4056 10.1038/nbt.4056]; GPMDB: [http://gpmdb.org/data/keyword/29251727 33]. | ||
+ | #Bielecka ZF, Malinowska A, Brodaczewska KK, Klemba A, Kieda C, Krasowski P, Grzesiuk E, Piwowarski J, Czarnecka AM, Szczylik C, (2017) "Hypoxic 3D in vitro culture models reveal distinct resistance processes to TKIs in renal cancer cells." <i>Cell Biosci</i> <b>7</b>:71; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29270287 29270287]; doi: [https://dx.doi.org/10.1186/s13578-017-0197-8 10.1186/s13578-017-0197-8]; GPMDB: [http://gpmdb.org/data/keyword/29270287 12]. | ||
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+ | #Thriene K, Grüning BA, Bornert O, Erxleben A, Leppert J, Athanasiou I, Weber E, Kiritsi D, Nyström A, Reinheckel T, Backofen R, Has C, Bruckner-Tuderman L, Dengjel J, (2018) "Combinatorial omics analysis reveals perturbed lysosomal homeostasis in collagen VII-deficient keratinocytes." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29326176 29326176]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000437 10.1074/mcp.RA117.000437]; GPMDB: [http://gpmdb.org/data/keyword/29326176 5]. |
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.
CAUTION: Many papers contain serious errors in their Methods sections. When using data from the literature, it is important to be skeptical of any experimental parameter (cell line, tissue type, modification reagents, quantitation methoods, etc.) that may impact on your use of the data. We have tried to correct any obvious errors, but there is no way to guarantee that we found them all. When attempting to analyze or reproduce results, keep in mind the likelyhood that even key parts of the experiment methods may have been recorded incorrectly in the associated manuscript, as methods are rarely reviewed properly in the current journal publication process.
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 Jan. 22, 2018.