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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 July | + | 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 July 30, 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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#Murphy JP, Stepanova E, Everley RA, Paulo JA, Gygi SP, (2015) "Comprehensive Temporal Protein Dynamics during the Diauxic Shift in Saccharomyces cerevisiae." <i>Mol Cell Proteomics</i> <b>14</b>(9):2454–65; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26077900 26077900]; doi: [https://dx.doi.org/10.1074/mcp.M114.045849 10.1074/mcp.M114.045849]; GPMDB: [http://gpmdb.org/data/keyword/26077900 66]. | #Murphy JP, Stepanova E, Everley RA, Paulo JA, Gygi SP, (2015) "Comprehensive Temporal Protein Dynamics during the Diauxic Shift in Saccharomyces cerevisiae." <i>Mol Cell Proteomics</i> <b>14</b>(9):2454–65; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26077900 26077900]; doi: [https://dx.doi.org/10.1074/mcp.M114.045849 10.1074/mcp.M114.045849]; GPMDB: [http://gpmdb.org/data/keyword/26077900 66]. | ||
#Wiśniewski JR, Gizak A, Rakus D, (2015) "Integrating Proteomics and Enzyme Kinetics Reveals Tissue-Specific Types of the Glycolytic and Gluconeogenic Pathways." <i>J Proteome Res</i> <b>14</b>(8):3263–73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26080680 26080680]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00276 10.1021/acs.jproteome.5b00276]; GPMDB: [http://gpmdb.org/data/keyword/26080680 18]. | #Wiśniewski JR, Gizak A, Rakus D, (2015) "Integrating Proteomics and Enzyme Kinetics Reveals Tissue-Specific Types of the Glycolytic and Gluconeogenic Pathways." <i>J Proteome Res</i> <b>14</b>(8):3263–73; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26080680 26080680]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00276 10.1021/acs.jproteome.5b00276]; GPMDB: [http://gpmdb.org/data/keyword/26080680 18]. | ||
+ | #Yagoub D, Hart-Smith G, Moecking J, Erce MA, Wilkins MR, (2015) "Yeast proteins Gar1p, Nop1p, Npl3p, Nsr1p, and Rps2p are natively methylated and are substrates of the arginine methyltransferase Hmt1p." <i>Proteomics</i> <b>15</b>(18):3209–18; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26081071 26081071]; doi: [https://dx.doi.org/10.1002/pmic.201500075 10.1002/pmic.201500075]; GPMDB: [http://gpmdb.org/data/keyword/26081071 7]. | ||
#Mui MZ, Zhou Y, Blanchette P, Chughtai N, Knight JF, Gruosso T, Papadakis AI, Huang S, Park M, Gingras AC, Branton PE, (2015) "The Human Adenovirus Type 5 E4orf4 Protein Targets Two Phosphatase Regulators of the Hippo Signaling Pathway." <i>J Virol</i> <b>89</b>(17):8855–70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26085163 26085163]; doi: [https://dx.doi.org/10.1128/JVI.03710-14 10.1128/JVI.03710-14]; GPMDB: [http://gpmdb.org/data/keyword/26085163 16]. | #Mui MZ, Zhou Y, Blanchette P, Chughtai N, Knight JF, Gruosso T, Papadakis AI, Huang S, Park M, Gingras AC, Branton PE, (2015) "The Human Adenovirus Type 5 E4orf4 Protein Targets Two Phosphatase Regulators of the Hippo Signaling Pathway." <i>J Virol</i> <b>89</b>(17):8855–70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26085163 26085163]; doi: [https://dx.doi.org/10.1128/JVI.03710-14 10.1128/JVI.03710-14]; GPMDB: [http://gpmdb.org/data/keyword/26085163 16]. | ||
#Cehofski LJ, Kruse A, Kjærgaard B, Stensballe A, Honoré B, Vorum H, (2015) "Proteins involved in focal adhesion signaling pathways are differentially regulated in experimental branch retinal vein occlusion." <i>Exp Eye Res</i> <b>138</b>:87–95; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26086079 26086079]; doi: [https://dx.doi.org/10.1016/j.exer.2015.06.011 10.1016/j.exer.2015.06.011]; GPMDB: [http://gpmdb.org/data/keyword/26086079 48]. | #Cehofski LJ, Kruse A, Kjærgaard B, Stensballe A, Honoré B, Vorum H, (2015) "Proteins involved in focal adhesion signaling pathways are differentially regulated in experimental branch retinal vein occlusion." <i>Exp Eye Res</i> <b>138</b>:87–95; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26086079 26086079]; doi: [https://dx.doi.org/10.1016/j.exer.2015.06.011 10.1016/j.exer.2015.06.011]; GPMDB: [http://gpmdb.org/data/keyword/26086079 48]. | ||
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#Li S, Dislich B, Brakebusch CH, Lichtenthaler SF, Brocker T, (2015) "Control of Homeostasis and Dendritic Cell Survival by the GTPase RhoA." <i>J Immunol</i> <b>195</b>(9):4244–56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26408665 26408665]; doi: [https://dx.doi.org/10.4049/jimmunol.1500676 10.4049/jimmunol.1500676]; GPMDB: [http://gpmdb.org/data/keyword/26408665 60]. | #Li S, Dislich B, Brakebusch CH, Lichtenthaler SF, Brocker T, (2015) "Control of Homeostasis and Dendritic Cell Survival by the GTPase RhoA." <i>J Immunol</i> <b>195</b>(9):4244–56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26408665 26408665]; doi: [https://dx.doi.org/10.4049/jimmunol.1500676 10.4049/jimmunol.1500676]; GPMDB: [http://gpmdb.org/data/keyword/26408665 60]. | ||
#Beckley JR, Chen JS, Yang Y, Peng J, Gould KL, (2015) "A Degenerate Cohort of Yeast Membrane Trafficking DUBs Mediates Cell Polarity and Survival." <i>Mol Cell Proteomics</i> <b>14</b>(12):3132–41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26412298 26412298]; doi: [https://dx.doi.org/10.1074/mcp.M115.050039 10.1074/mcp.M115.050039]; GPMDB: [http://gpmdb.org/data/keyword/26412298 246]. | #Beckley JR, Chen JS, Yang Y, Peng J, Gould KL, (2015) "A Degenerate Cohort of Yeast Membrane Trafficking DUBs Mediates Cell Polarity and Survival." <i>Mol Cell Proteomics</i> <b>14</b>(12):3132–41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26412298 26412298]; doi: [https://dx.doi.org/10.1074/mcp.M115.050039 10.1074/mcp.M115.050039]; GPMDB: [http://gpmdb.org/data/keyword/26412298 246]. | ||
- | #Glatter T, Ahrné E, Schmidt A, (2015) "Comparison of Different Sample Preparation Protocols Reveals Lysis Buffer-Specific Extraction Biases in Gram-Negative Bacteria and Human Cells." <i>J Proteome Res</i> <b>14</b>(11):4472–85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26412744 26412744]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00654 10.1021/acs.jproteome.5b00654]; GPMDB: [http://gpmdb.org/data/keyword/26412744 | + | #Glatter T, Ahrné E, Schmidt A, (2015) "Comparison of Different Sample Preparation Protocols Reveals Lysis Buffer-Specific Extraction Biases in Gram-Negative Bacteria and Human Cells." <i>J Proteome Res</i> <b>14</b>(11):4472–85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26412744 26412744]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00654 10.1021/acs.jproteome.5b00654]; GPMDB: [http://gpmdb.org/data/keyword/26412744 892]. |
#Hadley KC, Rakhit R, Guo H, Sun Y, Jonkman JE, McLaurin J, Hazrati LN, Emili A, Chakrabartty A, (2015) "Determining composition of micron-scale protein deposits in neurodegenerative disease by spatially targeted optical microproteomics." <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26418743 26418743]; doi: [https://dx.doi.org/10.7554/eLife.09579 10.7554/eLife.09579]; GPMDB: [http://gpmdb.org/data/keyword/26418743 12]. | #Hadley KC, Rakhit R, Guo H, Sun Y, Jonkman JE, McLaurin J, Hazrati LN, Emili A, Chakrabartty A, (2015) "Determining composition of micron-scale protein deposits in neurodegenerative disease by spatially targeted optical microproteomics." <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26418743 26418743]; doi: [https://dx.doi.org/10.7554/eLife.09579 10.7554/eLife.09579]; GPMDB: [http://gpmdb.org/data/keyword/26418743 12]. | ||
#Gallart-Palau X, Serra A, Wong AS, Sandin S, Lai MK, Chen CP, Kon OL, Sze SK, (2015) "Extracellular vesicles are rapidly purified from human plasma by PRotein Organic Solvent PRecipitation (PROSPR)." <i>Sci Rep</i> <b>5</b>:14664; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26419333 26419333]; doi: [https://dx.doi.org/10.1038/srep14664 10.1038/srep14664]; GPMDB: [http://gpmdb.org/data/keyword/26419333 172]. | #Gallart-Palau X, Serra A, Wong AS, Sandin S, Lai MK, Chen CP, Kon OL, Sze SK, (2015) "Extracellular vesicles are rapidly purified from human plasma by PRotein Organic Solvent PRecipitation (PROSPR)." <i>Sci Rep</i> <b>5</b>:14664; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26419333 26419333]; doi: [https://dx.doi.org/10.1038/srep14664 10.1038/srep14664]; GPMDB: [http://gpmdb.org/data/keyword/26419333 172]. | ||
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#Dörfel MJ, Fang H, Crain J, Klingener M, Weiser J, Lyon GJ, (2016) "Proteomic and genomic characterization of a yeast model for Ogden syndrome." <i>Yeast</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27668839 27668839]; doi: [https://dx.doi.org/10.1002/yea.3211 10.1002/yea.3211]; GPMDB: [http://gpmdb.org/data/keyword/27668839 1]. | #Dörfel MJ, Fang H, Crain J, Klingener M, Weiser J, Lyon GJ, (2016) "Proteomic and genomic characterization of a yeast model for Ogden syndrome." <i>Yeast</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27668839 27668839]; doi: [https://dx.doi.org/10.1002/yea.3211 10.1002/yea.3211]; GPMDB: [http://gpmdb.org/data/keyword/27668839 1]. | ||
#Lee A, Miller D, Henry R, Paruchuri VD, O'Meally RN, Boronina T, Cole RN, Zachara NE, (2016) "Combined Antibody/Lectin Enrichment Identifies Extensive Changes in the O-GlcNAc Sub-proteome upon Oxidative Stress." <i>J Proteome Res</i> <b>15</b>(12):4318–4336; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27669760 27669760]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00369 10.1021/acs.jproteome.6b00369]; GPMDB: [http://gpmdb.org/data/keyword/27669760 14]. | #Lee A, Miller D, Henry R, Paruchuri VD, O'Meally RN, Boronina T, Cole RN, Zachara NE, (2016) "Combined Antibody/Lectin Enrichment Identifies Extensive Changes in the O-GlcNAc Sub-proteome upon Oxidative Stress." <i>J Proteome Res</i> <b>15</b>(12):4318–4336; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27669760 27669760]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00369 10.1021/acs.jproteome.6b00369]; GPMDB: [http://gpmdb.org/data/keyword/27669760 14]. | ||
+ | #Smirnov A, Förstner KU, Holmqvist E, Otto A, Günster R, Becher D, Reinhardt R, Vogel J, (2016) "Grad-seq guides the discovery of ProQ as a major small RNA-binding protein." <i>Proc Natl Acad Sci U S A</i> <b>113</b>(41):11591–11596; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27671629 27671629]; doi: [https://dx.doi.org/10.1073/pnas.1609981113 10.1073/pnas.1609981113]; GPMDB: [http://gpmdb.org/data/keyword/27671629 200]. | ||
#Lyon SM, Mayampurath A, Rogers MR, Wolfgeher DJ, Fisher SM, Volchenboum SL, He TC, Reid RR, (2016) "A method for whole protein isolation from human cranial bone." <i>Anal Biochem</i> <b>515</b>:33–39; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27677936 27677936]; doi: [https://dx.doi.org/10.1016/j.ab.2016.09.021 10.1016/j.ab.2016.09.021]; GPMDB: [http://gpmdb.org/data/keyword/27677936 10]. | #Lyon SM, Mayampurath A, Rogers MR, Wolfgeher DJ, Fisher SM, Volchenboum SL, He TC, Reid RR, (2016) "A method for whole protein isolation from human cranial bone." <i>Anal Biochem</i> <b>515</b>:33–39; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27677936 27677936]; doi: [https://dx.doi.org/10.1016/j.ab.2016.09.021 10.1016/j.ab.2016.09.021]; GPMDB: [http://gpmdb.org/data/keyword/27677936 10]. | ||
#Larkin SE, Johnston HE, Jackson TR, Jamieson DG, Roumeliotis TI, Mockridge CI, Michael A, Manousopoulou A, Papachristou EK, Brown MD, Clarke NW, Pandha H, Aukim-Hastie CL, Cragg MS, Garbis SD, Townsend PA, (2016) "Detection of candidate biomarkers of prostate cancer progression in serum: a depletion-free 3D LC/MS quantitative proteomics pilot study." <i>Br J Cancer</i> <b>115</b>(9):1078–1086; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27685442 27685442]; doi: [https://dx.doi.org/10.1038/bjc.2016.291 10.1038/bjc.2016.291]; GPMDB: [http://gpmdb.org/data/keyword/27685442 8]. | #Larkin SE, Johnston HE, Jackson TR, Jamieson DG, Roumeliotis TI, Mockridge CI, Michael A, Manousopoulou A, Papachristou EK, Brown MD, Clarke NW, Pandha H, Aukim-Hastie CL, Cragg MS, Garbis SD, Townsend PA, (2016) "Detection of candidate biomarkers of prostate cancer progression in serum: a depletion-free 3D LC/MS quantitative proteomics pilot study." <i>Br J Cancer</i> <b>115</b>(9):1078–1086; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27685442 27685442]; doi: [https://dx.doi.org/10.1038/bjc.2016.291 10.1038/bjc.2016.291]; GPMDB: [http://gpmdb.org/data/keyword/27685442 8]. | ||
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#Assoni A, Coatti G, Valadares MC, Beccari M, Gomes J, Pelatti M, Mitne-Neto M, Carvalho VM, Zatz M, (2016) "Different Donors Mesenchymal Stromal Cells Secretomes Reveal Heterogeneous Profile of Relevance for Therapeutic Use." <i>Stem Cells Dev</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27762666 27762666]; doi: [https://dx.doi.org/10.1089/scd.2016.0218 10.1089/scd.2016.0218]; GPMDB: [http://gpmdb.org/data/keyword/27762666 48]. | #Assoni A, Coatti G, Valadares MC, Beccari M, Gomes J, Pelatti M, Mitne-Neto M, Carvalho VM, Zatz M, (2016) "Different Donors Mesenchymal Stromal Cells Secretomes Reveal Heterogeneous Profile of Relevance for Therapeutic Use." <i>Stem Cells Dev</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27762666 27762666]; doi: [https://dx.doi.org/10.1089/scd.2016.0218 10.1089/scd.2016.0218]; GPMDB: [http://gpmdb.org/data/keyword/27762666 48]. | ||
#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]. | ||
#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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#Beach RR, Ricci-Tam C, Brennan CM, Moomau CA, Hsu PH, Hua B, Silberman RE, Springer M, Amon A, (2017) "Aneuploidy Causes Non-genetic Individuality." <i>Cell</i> <b>169</b>(2):229–242.e21; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28388408 28388408]; doi: [https://dx.doi.org/10.1016/j.cell.2017.03.021 10.1016/j.cell.2017.03.021]; GPMDB: [http://gpmdb.org/data/keyword/28388408 3]. | #Beach RR, Ricci-Tam C, Brennan CM, Moomau CA, Hsu PH, Hua B, Silberman RE, Springer M, Amon A, (2017) "Aneuploidy Causes Non-genetic Individuality." <i>Cell</i> <b>169</b>(2):229–242.e21; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28388408 28388408]; doi: [https://dx.doi.org/10.1016/j.cell.2017.03.021 10.1016/j.cell.2017.03.021]; GPMDB: [http://gpmdb.org/data/keyword/28388408 3]. | ||
#Worst TS, von Hardenberg J, Gross JC, Erben P, Schnoelzer M, Hausser I, Bugert P, Michel MS, Boutros M, (2017) "A database-augmented, exosome-based mass spectrometry approach exemplarily identifies circulating claudin 3 as biomarker in prostate cancer." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28396511 28396511]; doi: [https://dx.doi.org/10.1074/mcp.M117.068577 10.1074/mcp.M117.068577]; GPMDB: [http://gpmdb.org/data/keyword/28396511 17]. | #Worst TS, von Hardenberg J, Gross JC, Erben P, Schnoelzer M, Hausser I, Bugert P, Michel MS, Boutros M, (2017) "A database-augmented, exosome-based mass spectrometry approach exemplarily identifies circulating claudin 3 as biomarker in prostate cancer." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28396511 28396511]; doi: [https://dx.doi.org/10.1074/mcp.M117.068577 10.1074/mcp.M117.068577]; GPMDB: [http://gpmdb.org/data/keyword/28396511 17]. | ||
+ | #Mohr S, Doebele C, Comoglio F, Berg T, Beck J, Bohnenberger H, Alexe G, Corso J, Ströbel P, Wachter A, Beissbarth T, Schnütgen F, Cremer A, Haetscher N, Göllner S, Rouhi A, Palmqvist L, Rieger MA, Schroeder T, Bönig H, Müller-Tidow C, Kuchenbauer F, Schütz E, Green AR, Urlaub H, Stegmaier K, Humphries RK, Serve H, Oellerich T, (2017) "Hoxa9 and Meis1 Cooperatively Induce Addiction to Syk Signaling by Suppressing miR-146a in Acute Myeloid Leukemia." <i>Cancer Cell</i> <b>31</b>(4):549–562.e11; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28399410 28399410]; doi: [https://dx.doi.org/10.1016/j.ccell.2017.03.001 10.1016/j.ccell.2017.03.001]; GPMDB: [http://gpmdb.org/data/keyword/28399410 30]. | ||
#Rinschen MM, Grahammer F, Hoppe AK, Kohli P, Hagmann H, Kretz O, Bertsch S, Höhne M, Göbel H, Bartram MP, Gandhirajan RK, Krüger M, Brinkkoetter PT, Huber TB, Kann M, Wickström SA, Benzing T, Schermer B, (2017) "YAP-mediated mechanotransduction determines the podocyte's response to damage." <i>Sci Signal</i> <b>10</b>(474):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28400537 28400537]; doi: [https://dx.doi.org/10.1126/scisignal.aaf8165 10.1126/scisignal.aaf8165]; GPMDB: [http://gpmdb.org/data/keyword/28400537 23]. | #Rinschen MM, Grahammer F, Hoppe AK, Kohli P, Hagmann H, Kretz O, Bertsch S, Höhne M, Göbel H, Bartram MP, Gandhirajan RK, Krüger M, Brinkkoetter PT, Huber TB, Kann M, Wickström SA, Benzing T, Schermer B, (2017) "YAP-mediated mechanotransduction determines the podocyte's response to damage." <i>Sci Signal</i> <b>10</b>(474):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28400537 28400537]; doi: [https://dx.doi.org/10.1126/scisignal.aaf8165 10.1126/scisignal.aaf8165]; GPMDB: [http://gpmdb.org/data/keyword/28400537 23]. | ||
#Müller MM, Lehmann R, Klassert TE, Reifenstein S, Conrad T, Moore C, Kuhn A, Behnert A, Guthke R, Driesch D, Slevogt H, (2017) "Global analysis of glycoproteins identifies markers of endotoxin tolerant monocytes and GPR84 as a modulator of TNFα expression." <i>Sci Rep</i> <b>7</b>(1):838; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28404994 28404994]; doi: [https://dx.doi.org/10.1038/s41598-017-00828-y 10.1038/s41598-017-00828-y]; GPMDB: [http://gpmdb.org/data/keyword/28404994 138]. | #Müller MM, Lehmann R, Klassert TE, Reifenstein S, Conrad T, Moore C, Kuhn A, Behnert A, Guthke R, Driesch D, Slevogt H, (2017) "Global analysis of glycoproteins identifies markers of endotoxin tolerant monocytes and GPR84 as a modulator of TNFα expression." <i>Sci Rep</i> <b>7</b>(1):838; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28404994 28404994]; doi: [https://dx.doi.org/10.1038/s41598-017-00828-y 10.1038/s41598-017-00828-y]; GPMDB: [http://gpmdb.org/data/keyword/28404994 138]. | ||
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#Xu B, Gao Y, Zhan S, Ge W, (2017) "Quantitative proteomic profiling for clarification of the crucial roles of lysosomes in microbial infections." <i>Mol Immunol</i> <b>87</b>:122–131; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28433889 28433889]; doi: [https://dx.doi.org/10.1016/j.molimm.2017.04.002 10.1016/j.molimm.2017.04.002]; GPMDB: [http://gpmdb.org/data/keyword/28433889 2]. | #Xu B, Gao Y, Zhan S, Ge W, (2017) "Quantitative proteomic profiling for clarification of the crucial roles of lysosomes in microbial infections." <i>Mol Immunol</i> <b>87</b>:122–131; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28433889 28433889]; doi: [https://dx.doi.org/10.1016/j.molimm.2017.04.002 10.1016/j.molimm.2017.04.002]; GPMDB: [http://gpmdb.org/data/keyword/28433889 2]. | ||
#Clulow JA, Storck EM, Lanyon-Hogg T, Kalesh KA, Jones LH, Tate EW, (2017) "Competition-based, quantitative chemical proteomics in breast cancer cells identifies new target profiles for sulforaphane." <i>Chem Commun (Camb)</i> <b>53</b>(37):5182–5185; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28439590 28439590]; doi: [https://dx.doi.org/10.1039/c6cc08797c 10.1039/c6cc08797c]; GPMDB: [http://gpmdb.org/data/keyword/28439590 32]. | #Clulow JA, Storck EM, Lanyon-Hogg T, Kalesh KA, Jones LH, Tate EW, (2017) "Competition-based, quantitative chemical proteomics in breast cancer cells identifies new target profiles for sulforaphane." <i>Chem Commun (Camb)</i> <b>53</b>(37):5182–5185; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28439590 28439590]; doi: [https://dx.doi.org/10.1039/c6cc08797c 10.1039/c6cc08797c]; GPMDB: [http://gpmdb.org/data/keyword/28439590 32]. | ||
+ | #Arntzen MØ, Várnai A, Mackie RI, Eijsink VGH, Pope PB, (2017) "Outer membrane vesicles from Fibrobacter succinogenes S85 contain an array of carbohydrate-active enzymes with versatile polysaccharide-degrading capacity." <i>Environ Microbiol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28447389 28447389]; doi: [https://dx.doi.org/10.1111/1462-2920.13770 10.1111/1462-2920.13770]; GPMDB: [http://gpmdb.org/data/keyword/28447389 20]. | ||
#Nguyen EV, Huhtinen K, Goo YA, Kaipio K, Andersson N, Rantanen V, Hynninen J, Lahesmaa R, Carpen O, Goodlett DR, (2017) "Hyper-phosphorylation of Sequestosome-1 distinguishes resistance to cisplatin in patient derived high grade serous ovarian cancer cells." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28455291 28455291]; doi: [https://dx.doi.org/10.1074/mcp.M116.058321 10.1074/mcp.M116.058321]; GPMDB: [http://gpmdb.org/data/keyword/28455291 60]. | #Nguyen EV, Huhtinen K, Goo YA, Kaipio K, Andersson N, Rantanen V, Hynninen J, Lahesmaa R, Carpen O, Goodlett DR, (2017) "Hyper-phosphorylation of Sequestosome-1 distinguishes resistance to cisplatin in patient derived high grade serous ovarian cancer cells." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28455291 28455291]; doi: [https://dx.doi.org/10.1074/mcp.M116.058321 10.1074/mcp.M116.058321]; GPMDB: [http://gpmdb.org/data/keyword/28455291 60]. | ||
+ | #Aviner R, Hofmann S, Elman T, Shenoy A, Geiger T, Elkon R, Ehrlich M, Elroy-Stein O, (2017) "Proteomic analysis of polyribosomes identifies splicing factors as potential regulators of translation during mitosis." <i>Nucleic Acids Res</i> <b>45</b>(10):5945–5957; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28460002 28460002]; doi: [https://dx.doi.org/10.1093/nar/gkx326 10.1093/nar/gkx326]; GPMDB: [http://gpmdb.org/data/keyword/28460002 15]. | ||
#Tran TT, Strozynski M, Thiede B, (2017) "Quantitative phosphoproteome analysis of cisplatin-induced apoptosis in Jurkat T cells." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28464451 28464451]; doi: [https://dx.doi.org/10.1002/pmic.201600470 10.1002/pmic.201600470]; GPMDB: [http://gpmdb.org/data/keyword/28464451 32]. | #Tran TT, Strozynski M, Thiede B, (2017) "Quantitative phosphoproteome analysis of cisplatin-induced apoptosis in Jurkat T cells." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28464451 28464451]; doi: [https://dx.doi.org/10.1002/pmic.201600470 10.1002/pmic.201600470]; GPMDB: [http://gpmdb.org/data/keyword/28464451 32]. | ||
#Ooi JD, Petersen J, Tan YH, Huynh M, Willett ZJ, Ramarathinam SH, Eggenhuizen PJ, Loh KL, Watson KA, Gan PY, Alikhan MA, Dudek NL, Handel A, Hudson BG, Fugger L, Power DA, Holt SG, Coates PT, Gregersen JW, Purcell AW, Holdsworth SR, La Gruta NL, Reid HH, Rossjohn J, Kitching AR, (2017) "Dominant protection from HLA-linked autoimmunity by antigen-specific regulatory T cells." <i>Nature</i> <b>545</b>(7653):243–247; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28467828 28467828]; doi: [https://dx.doi.org/10.1038/nature22329 10.1038/nature22329]; GPMDB: [http://gpmdb.org/data/keyword/28467828 30]. | #Ooi JD, Petersen J, Tan YH, Huynh M, Willett ZJ, Ramarathinam SH, Eggenhuizen PJ, Loh KL, Watson KA, Gan PY, Alikhan MA, Dudek NL, Handel A, Hudson BG, Fugger L, Power DA, Holt SG, Coates PT, Gregersen JW, Purcell AW, Holdsworth SR, La Gruta NL, Reid HH, Rossjohn J, Kitching AR, (2017) "Dominant protection from HLA-linked autoimmunity by antigen-specific regulatory T cells." <i>Nature</i> <b>545</b>(7653):243–247; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28467828 28467828]; doi: [https://dx.doi.org/10.1038/nature22329 10.1038/nature22329]; GPMDB: [http://gpmdb.org/data/keyword/28467828 30]. | ||
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#Kramer DA, Eldeeb MA, Wuest M, Mercer J, Fahlman RP, (2017) "Proteomic characterization of EL4 lymphoma derived tumors upon chemotherapy treatment reveals potential roles for lysosomes and caspase-6 during tumor cell death in vivo." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28508578 28508578]; doi: [https://dx.doi.org/10.1002/pmic.201700060 10.1002/pmic.201700060]; GPMDB: [http://gpmdb.org/data/keyword/28508578 150]. | #Kramer DA, Eldeeb MA, Wuest M, Mercer J, Fahlman RP, (2017) "Proteomic characterization of EL4 lymphoma derived tumors upon chemotherapy treatment reveals potential roles for lysosomes and caspase-6 during tumor cell death in vivo." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28508578 28508578]; doi: [https://dx.doi.org/10.1002/pmic.201700060 10.1002/pmic.201700060]; GPMDB: [http://gpmdb.org/data/keyword/28508578 150]. | ||
#Peng W, Zhang Y, Zhu R, Mechref Y, (2017) "Comparative Membrane Proteomics Analyses of Breast Cancer Cell Lines to Understand the Molecular Mechanism of Breast Cancer Brain Metastasis." <i>Electrophoresis</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28523741 28523741]; doi: [https://dx.doi.org/10.1002/elps.201700027 10.1002/elps.201700027]; GPMDB: [http://gpmdb.org/data/keyword/28523741 18]. | #Peng W, Zhang Y, Zhu R, Mechref Y, (2017) "Comparative Membrane Proteomics Analyses of Breast Cancer Cell Lines to Understand the Molecular Mechanism of Breast Cancer Brain Metastasis." <i>Electrophoresis</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28523741 28523741]; doi: [https://dx.doi.org/10.1002/elps.201700027 10.1002/elps.201700027]; GPMDB: [http://gpmdb.org/data/keyword/28523741 18]. | ||
+ | #Zai X, Yang Q, Liu K, Li R, Qian M, Zhao T, Li Y, Yin Y, Dong D, Fu L, Li S, Xu J, Chen W, (2017) "A comprehensive proteogenomic study of the human Brucella vaccine strain 104 M." <i>BMC Genomics</i> <b>18</b>(1):402; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28535754 28535754]; doi: [https://dx.doi.org/10.1186/s12864-017-3800-9 10.1186/s12864-017-3800-9]; GPMDB: [http://gpmdb.org/data/keyword/28535754 90]. | ||
#Yimer SA, Birhanu AG, Kalayou S, Riaz T, Zegeye ED, Beyene GT, Holm-Hansen C, Norheim G, Abebe M, Aseffa A, Tønjum T, (2017) "Comparative Proteomic Analysis of <i>Mycobacterium tuberculosis</i> Lineage 7 and Lineage 4 Strains Reveals Differentially Abundant Proteins Linked to Slow Growth and Virulence." <i>Front Microbiol</i> <b>8</b>:795; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28536560 28536560]; doi: [https://dx.doi.org/10.3389/fmicb.2017.00795 10.3389/fmicb.2017.00795]; GPMDB: [http://gpmdb.org/data/keyword/28536560 158]. | #Yimer SA, Birhanu AG, Kalayou S, Riaz T, Zegeye ED, Beyene GT, Holm-Hansen C, Norheim G, Abebe M, Aseffa A, Tønjum T, (2017) "Comparative Proteomic Analysis of <i>Mycobacterium tuberculosis</i> Lineage 7 and Lineage 4 Strains Reveals Differentially Abundant Proteins Linked to Slow Growth and Virulence." <i>Front Microbiol</i> <b>8</b>:795; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28536560 28536560]; doi: [https://dx.doi.org/10.3389/fmicb.2017.00795 10.3389/fmicb.2017.00795]; GPMDB: [http://gpmdb.org/data/keyword/28536560 158]. | ||
#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]. | ||
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#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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#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]. | ||
#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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+ | #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]. | ||
+ | #Erdmann J, Junemann J, Schröder A, Just I, Gerhard R, Pich A, (2017) "Glucosyltransferase-dependent and -independent effects of TcdB on the proteome of HEp-2 cells." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28612519 28612519]; doi: [https://dx.doi.org/10.1002/pmic.201600435 10.1002/pmic.201600435]; GPMDB: [http://gpmdb.org/data/keyword/28612519 36]. | ||
#Murgia M, Toniolo L, Nagaraj N, Ciciliot S, Vindigni V, Schiaffino S, Reggiani C, Mann M, (2017) "Single Muscle Fiber Proteomics Reveals Fiber-Type-Specific Features of Human Muscle Aging." <i>Cell Rep</i> <b>19</b>(11):2396–2409; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28614723 28614723]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.05.054 10.1016/j.celrep.2017.05.054]; GPMDB: [http://gpmdb.org/data/keyword/28614723 174]. | #Murgia M, Toniolo L, Nagaraj N, Ciciliot S, Vindigni V, Schiaffino S, Reggiani C, Mann M, (2017) "Single Muscle Fiber Proteomics Reveals Fiber-Type-Specific Features of Human Muscle Aging." <i>Cell Rep</i> <b>19</b>(11):2396–2409; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28614723 28614723]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.05.054 10.1016/j.celrep.2017.05.054]; GPMDB: [http://gpmdb.org/data/keyword/28614723 174]. | ||
+ | #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]. | ||
+ | #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]. | ||
#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]. | ||
+ | #Cosme J, Guo H, Hadipour-Lakmehsari S, Emili A, Gramolini AO, (2017) "Hypoxia-Induced Changes in the Fibroblast Secretome, Exosome, and Whole-Cell Proteome Using Cultured, Cardiac-Derived Cells Isolated from Neonatal Mice." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28641008 28641008]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00144 10.1021/acs.jproteome.7b00144]; GPMDB: [http://gpmdb.org/data/keyword/28641008 39]. | ||
+ | #Belmont J, Gu T, Mudd A, Salomon AR, (2017) "A PLC-γ1 Feedback Pathway Regulates Lck Substrate Phosphorylation at the T-Cell Receptor and SLP-76 Complex." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28644030 28644030]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b01026 10.1021/acs.jproteome.6b01026]; GPMDB: [http://gpmdb.org/data/keyword/28644030 60]. | ||
+ | #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]. | ||
+ | #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]. | ||
+ | #Hulme CH, Wilson EL, Peffers MJ, Roberts S, Simpson DM, Richardson JB, Gallacher P, Wright KT, (2017) "Autologous chondrocyte implantation-derived synovial fluids display distinct responder and non-responder proteomic profiles." <i>Arthritis Res Ther</i> <b>19</b>(1):150; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28666451 28666451]; doi: [https://dx.doi.org/10.1186/s13075-017-1336-7 10.1186/s13075-017-1336-7]; GPMDB: [http://gpmdb.org/data/keyword/28666451 37]. | ||
+ | #Kim JH, Nam WS, Kim SJ, Kwon OK, Seung EJ, Jo JJ, Shresha R, Lee TH, Jeon TW, Ki SH, Lee HS, Lee S, (2017) "Mechanism Investigation of Rifampicin-Induced Liver Injury Using Comparative Toxicoproteomics in Mice." <i>Int J Mol Sci</i> <b>18</b>(7):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28671602 28671602]; doi: [https://dx.doi.org/10.3390/ijms18071417 10.3390/ijms18071417]; GPMDB: [http://gpmdb.org/data/keyword/28671602 10]. | ||
+ | #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 132]. | ||
+ | #Djuric U, Rodrigues DC, Batruch I, Ellis J, Shannon P, Diamandis P, (2017) "Spatiotemporal proteomic profiling of human cerebral development." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28687556 28687556]; doi: [https://dx.doi.org/10.1074/mcp.M116.066274 10.1074/mcp.M116.066274]; GPMDB: [http://gpmdb.org/data/keyword/28687556 99]. | ||
+ | #Reid SE, Kay EJ, Neilson LJ, Henze AT, Serneels J, McGhee EJ, Dhayade S, Nixon C, Mackey JB, Santi A, Swaminathan K, Athineos D, Papalazarou V, Patella F, Román-Fernández Á, ElMaghloob Y, Hernandez-Fernaud JR, Adams RH, Ismail S, Bryant DM, Salmeron-Sanchez M, Machesky LM, Carlin LM, Blyth K, Mazzone M, Zanivan S, (2017) "Tumor matrix stiffness promotes metastatic cancer cell interaction with the endothelium." <i>EMBO J</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28694244 28694244]; doi: [https://dx.doi.org/10.15252/embj.201694912 10.15252/embj.201694912]; GPMDB: [http://gpmdb.org/data/keyword/28694244 19]. | ||
+ | #Ovelleiro D, Blanco S, Hernández R, Peinado MÁ, (2017) "Comparative proteomic study of early hypoxic response in the cerebral cortex of rats submitted to two different hypoxic models." <i>Proteomics Clin Appl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28697276 28697276]; doi: [https://dx.doi.org/10.1002/prca.201700058 10.1002/prca.201700058]; GPMDB: [http://gpmdb.org/data/keyword/28697276 19]. | ||
+ | #Kohli P, Höhne M, Jüngst C, Bertsch S, Ebert LK, Schauss AC, Benzing T, Rinschen MM, Schermer B, (2017) "The ciliary membrane-associated proteome reveals actin-binding proteins as key components of cilia." <i>EMBO Rep</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28710093 28710093]; doi: [https://dx.doi.org/10.15252/embr.201643846 10.15252/embr.201643846]; GPMDB: [http://gpmdb.org/data/keyword/28710093 20]. | ||
+ | #Alfieri A, Sorokina O, Adrait A, Angelini C, Russo I, Morellato A, Matteoli M, Menna E, Boeri Erba E, McLean C, Armstrong JD, Ala U, Buxbaum JD, Brusco A, Couté Y, De Rubeis S, Turco E, Defilippi P, (2017) "Synaptic Interactome Mining Reveals p140Cap as a New Hub for PSD Proteins Involved in Psychiatric and Neurological Disorders." <i>Front Mol Neurosci</i> <b>10</b>:212; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28713243 28713243]; doi: [https://dx.doi.org/10.3389/fnmol.2017.00212 10.3389/fnmol.2017.00212]; GPMDB: [http://gpmdb.org/data/keyword/28713243 12]. | ||
+ | #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]. |
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 July 30, 2017.