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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 (1,245 publications) was current, as of October | + | 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 (1,245 publications) was current, as of October 9, 2016. |
#Scott N, Sutton J, Gray C, (1989) "Morphometric diagnosis of serous effusions: refinement of differences between benign and malignant cases by use of outlying values and larger sample size." <i>J Clin Pathol</i> <b>42</b>(6):607–12; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/2738165 2738165]; GPMDB: [http://gpmdb.org/data/keyword/2738165 1]. | #Scott N, Sutton J, Gray C, (1989) "Morphometric diagnosis of serous effusions: refinement of differences between benign and malignant cases by use of outlying values and larger sample size." <i>J Clin Pathol</i> <b>42</b>(6):607–12; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/2738165 2738165]; GPMDB: [http://gpmdb.org/data/keyword/2738165 1]. | ||
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#de Torre-Minguela C, Barberà-Cremades M, Gómez AI, Martín-Sánchez F, Pelegrín P, (2016) "Macrophage activation and polarization modify P2X7 receptor secretome influencing the inflammatory process." <i>Sci Rep</i> <b>6</b>:22586; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26935289 26935289]; doi: [https://dx.doi.org/10.1038/srep22586 10.1038/srep22586]; GPMDB: [http://gpmdb.org/data/keyword/26935289 118]. | #de Torre-Minguela C, Barberà-Cremades M, Gómez AI, Martín-Sánchez F, Pelegrín P, (2016) "Macrophage activation and polarization modify P2X7 receptor secretome influencing the inflammatory process." <i>Sci Rep</i> <b>6</b>:22586; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26935289 26935289]; doi: [https://dx.doi.org/10.1038/srep22586 10.1038/srep22586]; GPMDB: [http://gpmdb.org/data/keyword/26935289 118]. | ||
#Ly A, Merl-Pham J, Priller M, Gruhn F, Senninger N, Ueffing M, Hauck SM, (2016) "Proteomic Profiling Suggests Central Role Of STAT Signaling during Retinal Degeneration in the rd10 Mouse Model." <i>J Proteome Res</i> <b>15</b>(4):1350–9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26939627 26939627]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00111 10.1021/acs.jproteome.6b00111]; GPMDB: [http://gpmdb.org/data/keyword/26939627 24]. | #Ly A, Merl-Pham J, Priller M, Gruhn F, Senninger N, Ueffing M, Hauck SM, (2016) "Proteomic Profiling Suggests Central Role Of STAT Signaling during Retinal Degeneration in the rd10 Mouse Model." <i>J Proteome Res</i> <b>15</b>(4):1350–9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26939627 26939627]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00111 10.1021/acs.jproteome.6b00111]; GPMDB: [http://gpmdb.org/data/keyword/26939627 24]. | ||
- | #Salih M, Demmers JA, Bezstarosti K, Leonhard WN, Losekoot M, van Kooten C, Gansevoort RT, Peters DJ, Zietse R, Hoorn EJ, DIPAK Consortium, (2016) "Proteomics of Urinary Vesicles Links Plakins and Complement to Polycystic Kidney Disease." <i>J Am Soc Nephrol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26940098 26940098]; doi: [https://dx.doi.org/10.1681/ASN.2015090994 10.1681/ASN.2015090994]; GPMDB: [http://gpmdb.org/data/keyword/26940098 7]. | + | #Salih M, Demmers JA, Bezstarosti K, Leonhard WN, Losekoot M, van Kooten C, Gansevoort RT, Peters DJ, Zietse R, Hoorn EJ, DIPAK Consortium., (2016) "Proteomics of Urinary Vesicles Links Plakins and Complement to Polycystic Kidney Disease." <i>J Am Soc Nephrol</i> <b>27</b>(10):3079–3092; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26940098 26940098]; doi: [https://dx.doi.org/10.1681/ASN.2015090994 10.1681/ASN.2015090994]; GPMDB: [http://gpmdb.org/data/keyword/26940098 7]. |
#Kamkina P, Snoek LB, Grossmann J, Volkers RJ, Sterken MG, Daube M, Roschitzki B, Fortes C, Schlapbach R, Roth A, von Mering C, Hengartner MO, Schrimpf SP, Kammenga JE, (2016) "Natural Genetic Variation Differentially Affects the Proteome and Transcriptome in Caenorhabditis elegans." <i>Mol Cell Proteomics</i> <b>15</b>(5):1670–80; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26944343 26944343]; doi: [https://dx.doi.org/10.1074/mcp.M115.052548 10.1074/mcp.M115.052548]; GPMDB: [http://gpmdb.org/data/keyword/26944343 12]. | #Kamkina P, Snoek LB, Grossmann J, Volkers RJ, Sterken MG, Daube M, Roschitzki B, Fortes C, Schlapbach R, Roth A, von Mering C, Hengartner MO, Schrimpf SP, Kammenga JE, (2016) "Natural Genetic Variation Differentially Affects the Proteome and Transcriptome in Caenorhabditis elegans." <i>Mol Cell Proteomics</i> <b>15</b>(5):1670–80; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26944343 26944343]; doi: [https://dx.doi.org/10.1074/mcp.M115.052548 10.1074/mcp.M115.052548]; GPMDB: [http://gpmdb.org/data/keyword/26944343 12]. | ||
#Zhang T, Shen S, Qu J, Ghaemmaghami S, (2016) "Global Analysis of Cellular Protein Flux Quantifies the Selectivity of Basal Autophagy." <i>Cell Rep</i> <b>14</b>(10):2426–39; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26947064 26947064]; doi: [https://dx.doi.org/10.1016/j.celrep.2016.02.040 10.1016/j.celrep.2016.02.040]; GPMDB: [http://gpmdb.org/data/keyword/26947064 13]. | #Zhang T, Shen S, Qu J, Ghaemmaghami S, (2016) "Global Analysis of Cellular Protein Flux Quantifies the Selectivity of Basal Autophagy." <i>Cell Rep</i> <b>14</b>(10):2426–39; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26947064 26947064]; doi: [https://dx.doi.org/10.1016/j.celrep.2016.02.040 10.1016/j.celrep.2016.02.040]; GPMDB: [http://gpmdb.org/data/keyword/26947064 13]. | ||
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#Carabetta VJ, Greco TM, Tanner AW, Cristea IM, Dubnau D, (2016) "Temporal Regulation of the <i>Bacillus subtilis</i> Acetylome and Evidence for a Role of MreB Acetylation in Cell Wall Growth." <i>mSystems</i> <b>1</b>(3):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27376153 27376153]; doi: [https://dx.doi.org/10.1128/mSystems.00005-16 10.1128/mSystems.00005-16]; GPMDB: [http://gpmdb.org/data/keyword/27376153 30]. | #Carabetta VJ, Greco TM, Tanner AW, Cristea IM, Dubnau D, (2016) "Temporal Regulation of the <i>Bacillus subtilis</i> Acetylome and Evidence for a Role of MreB Acetylation in Cell Wall Growth." <i>mSystems</i> <b>1</b>(3):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27376153 27376153]; doi: [https://dx.doi.org/10.1128/mSystems.00005-16 10.1128/mSystems.00005-16]; GPMDB: [http://gpmdb.org/data/keyword/27376153 30]. | ||
#Sysoev VO, Fischer B, Frese CK, Gupta I, Krijgsveld J, Hentze MW, Castello A, Ephrussi A, (2016) "Global changes of the RNA-bound proteome during the maternal-to-zygotic transition in Drosophila." <i>Nat Commun</i> <b>7</b>:12128; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27378189 27378189]; doi: [https://dx.doi.org/10.1038/ncomms12128 10.1038/ncomms12128]; GPMDB: [http://gpmdb.org/data/keyword/27378189 25]. | #Sysoev VO, Fischer B, Frese CK, Gupta I, Krijgsveld J, Hentze MW, Castello A, Ephrussi A, (2016) "Global changes of the RNA-bound proteome during the maternal-to-zygotic transition in Drosophila." <i>Nat Commun</i> <b>7</b>:12128; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27378189 27378189]; doi: [https://dx.doi.org/10.1038/ncomms12128 10.1038/ncomms12128]; GPMDB: [http://gpmdb.org/data/keyword/27378189 25]. | ||
- | #Barasa BA, van Oirschot BA, Bianchi P, van Solinge WW, Heck AJ, van Wijk R, Slijper M, (2016) "Proteomics reveals reduced expression of transketolase in pyrimidine 5'-nucleotidase deficient patients." <i>Proteomics Clin Appl</i> <b>10</b>(8):859–69; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27381654 27381654]; doi: [https://dx.doi.org/10.1002/prca.201500130 10.1002/prca.201500130]; GPMDB: [http://gpmdb.org/data/keyword/27381654 | + | #Barasa BA, van Oirschot BA, Bianchi P, van Solinge WW, Heck AJ, van Wijk R, Slijper M, (2016) "Proteomics reveals reduced expression of transketolase in pyrimidine 5'-nucleotidase deficient patients." <i>Proteomics Clin Appl</i> <b>10</b>(8):859–69; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27381654 27381654]; doi: [https://dx.doi.org/10.1002/prca.201500130 10.1002/prca.201500130]; GPMDB: [http://gpmdb.org/data/keyword/27381654 7]. |
#Ashford P, Hernandez A, Greco TM, Buch A, Sodeik B, Cristea IM, Grünewald K, Shepherd A, Topf M, (2016) "HVint: A Strategy for Identifying Novel Protein-Protein Interactions in Herpes Simplex Virus Type 1." <i>Mol Cell Proteomics</i> <b>15</b>(9):2939–53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27384951 27384951]; doi: [https://dx.doi.org/10.1074/mcp.M116.058552 10.1074/mcp.M116.058552]; GPMDB: [http://gpmdb.org/data/keyword/27384951 19]. | #Ashford P, Hernandez A, Greco TM, Buch A, Sodeik B, Cristea IM, Grünewald K, Shepherd A, Topf M, (2016) "HVint: A Strategy for Identifying Novel Protein-Protein Interactions in Herpes Simplex Virus Type 1." <i>Mol Cell Proteomics</i> <b>15</b>(9):2939–53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27384951 27384951]; doi: [https://dx.doi.org/10.1074/mcp.M116.058552 10.1074/mcp.M116.058552]; GPMDB: [http://gpmdb.org/data/keyword/27384951 19]. | ||
#Picariello G, Addeo F, Ferranti P, Nocerino R, Paparo L, Passariello A, Dallas DC, Robinson RC, Barile D, Canani RB, (2016) "Antibody-independent identification of bovine milk-derived peptides in breast-milk." <i>Food Funct</i> <b>7</b>(8):3402–9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27396729 27396729]; doi: [https://dx.doi.org/10.1039/c6fo00731g 10.1039/c6fo00731g]; GPMDB: [http://gpmdb.org/data/keyword/27396729 12]. | #Picariello G, Addeo F, Ferranti P, Nocerino R, Paparo L, Passariello A, Dallas DC, Robinson RC, Barile D, Canani RB, (2016) "Antibody-independent identification of bovine milk-derived peptides in breast-milk." <i>Food Funct</i> <b>7</b>(8):3402–9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27396729 27396729]; doi: [https://dx.doi.org/10.1039/c6fo00731g 10.1039/c6fo00731g]; GPMDB: [http://gpmdb.org/data/keyword/27396729 12]. | ||
#Hampoelz B, Mackmull MT, Machado P, Ronchi P, Bui KH, Schieber N, Santarella-Mellwig R, Necakov A, Andrés-Pons A, Philippe JM, Lecuit T, Schwab Y, Beck M, (2016) "Pre-assembled Nuclear Pores Insert into the Nuclear Envelope during Early Development." <i>Cell</i> <b>166</b>(3):664–78; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27397507 27397507]; doi: [https://dx.doi.org/10.1016/j.cell.2016.06.015 10.1016/j.cell.2016.06.015]; GPMDB: [http://gpmdb.org/data/keyword/27397507 18]. | #Hampoelz B, Mackmull MT, Machado P, Ronchi P, Bui KH, Schieber N, Santarella-Mellwig R, Necakov A, Andrés-Pons A, Philippe JM, Lecuit T, Schwab Y, Beck M, (2016) "Pre-assembled Nuclear Pores Insert into the Nuclear Envelope during Early Development." <i>Cell</i> <b>166</b>(3):664–78; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27397507 27397507]; doi: [https://dx.doi.org/10.1016/j.cell.2016.06.015 10.1016/j.cell.2016.06.015]; GPMDB: [http://gpmdb.org/data/keyword/27397507 18]. | ||
- | #Konstantinell A, Bruun JA, Olsen R, Aspar A, Škalko-Basnet N, Sveinbjørnsson B, Moens U, (2016) "Secretomic analysis of extracellular vesicles originating from polyomavirus-negative and polyomavirus-positive Merkel cell carcinoma cell lines." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27402257 27402257]; doi: [https://dx.doi.org/10.1002/pmic.201600223 10.1002/pmic.201600223]; GPMDB: [http://gpmdb.org/data/keyword/27402257 28]. | + | #Konstantinell A, Bruun JA, Olsen R, Aspar A, Škalko-Basnet N, Sveinbjørnsson B, Moens U, (2016) "Secretomic analysis of extracellular vesicles originating from polyomavirus-negative and polyomavirus-positive Merkel cell carcinoma cell lines." <i>Proteomics</i> <b>16</b>(19):2587–2591; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27402257 27402257]; doi: [https://dx.doi.org/10.1002/pmic.201600223 10.1002/pmic.201600223]; GPMDB: [http://gpmdb.org/data/keyword/27402257 28]. |
#Shraibman B, Kadosh DM, Barnea E, Admon A, (2016) "Human Leukocyte Antigen (HLA) Peptides Derived from Tumor Antigens Induced by Inhibition of DNA Methylation for Development of Drug-facilitated Immunotherapy." <i>Mol Cell Proteomics</i> <b>15</b>(9):3058–70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27412690 27412690]; doi: [https://dx.doi.org/10.1074/mcp.M116.060350 10.1074/mcp.M116.060350]; GPMDB: [http://gpmdb.org/data/keyword/27412690 60]. | #Shraibman B, Kadosh DM, Barnea E, Admon A, (2016) "Human Leukocyte Antigen (HLA) Peptides Derived from Tumor Antigens Induced by Inhibition of DNA Methylation for Development of Drug-facilitated Immunotherapy." <i>Mol Cell Proteomics</i> <b>15</b>(9):3058–70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27412690 27412690]; doi: [https://dx.doi.org/10.1074/mcp.M116.060350 10.1074/mcp.M116.060350]; GPMDB: [http://gpmdb.org/data/keyword/27412690 60]. | ||
#Müller S, Balaz M, Stefanicka P, Varga L, Amri EZ, Ukropec J, Wollscheid B, Wolfrum C, (2016) "Proteomic Analysis of Human Brown Adipose Tissue Reveals Utilization of Coupled and Uncoupled Energy Expenditure Pathways." <i>Sci Rep</i> <b>6</b>:30030; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27418403 27418403]; doi: [https://dx.doi.org/10.1038/srep30030 10.1038/srep30030]; GPMDB: [http://gpmdb.org/data/keyword/27418403 32]. | #Müller S, Balaz M, Stefanicka P, Varga L, Amri EZ, Ukropec J, Wollscheid B, Wolfrum C, (2016) "Proteomic Analysis of Human Brown Adipose Tissue Reveals Utilization of Coupled and Uncoupled Energy Expenditure Pathways." <i>Sci Rep</i> <b>6</b>:30030; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27418403 27418403]; doi: [https://dx.doi.org/10.1038/srep30030 10.1038/srep30030]; GPMDB: [http://gpmdb.org/data/keyword/27418403 32]. | ||
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#Zhou Y, Xiong L, Zhang Y, Yu R, Jiang X, Xu G, (2016) "Quantitative proteomics identifies myoferlin as a novel regulator of A Disintegrin and Metalloproteinase 12 in HeLa cells." <i>J Proteomics</i> <b>148</b>:94–104; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27432471 27432471]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.07.015 10.1016/j.jprot.2016.07.015]; GPMDB: [http://gpmdb.org/data/keyword/27432471 14]. | #Zhou Y, Xiong L, Zhang Y, Yu R, Jiang X, Xu G, (2016) "Quantitative proteomics identifies myoferlin as a novel regulator of A Disintegrin and Metalloproteinase 12 in HeLa cells." <i>J Proteomics</i> <b>148</b>:94–104; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27432471 27432471]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.07.015 10.1016/j.jprot.2016.07.015]; GPMDB: [http://gpmdb.org/data/keyword/27432471 14]. | ||
#Li X, Tran KM, Aziz KE, Sorokin AV, Chen J, Wang W, (2016) "Defining the Protein-Protein Interaction Network of the Human Protein Tyrosine Phosphatase Family." <i>Mol Cell Proteomics</i> <b>15</b>(9):3030–44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27432908 27432908]; doi: [https://dx.doi.org/10.1074/mcp.M116.060277 10.1074/mcp.M116.060277]; GPMDB: [http://gpmdb.org/data/keyword/27432908 88]. | #Li X, Tran KM, Aziz KE, Sorokin AV, Chen J, Wang W, (2016) "Defining the Protein-Protein Interaction Network of the Human Protein Tyrosine Phosphatase Family." <i>Mol Cell Proteomics</i> <b>15</b>(9):3030–44; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27432908 27432908]; doi: [https://dx.doi.org/10.1074/mcp.M116.060277 10.1074/mcp.M116.060277]; GPMDB: [http://gpmdb.org/data/keyword/27432908 88]. | ||
- | #Suárez- | + | #Suárez-Cortés P, Sharma V, Bertuccini L, Costa G, Bannerman NL, Rosa Sannella A, Williamson K, Klemba M, Levashina EA, Lasonder E, Alano P, (2016) "Comparative Proteomics and Functional Analysis Reveal a Role of Plasmodium falciparum Osmiophilic Bodies in Malaria Parasite Transmission." <i>Mol Cell Proteomics</i> <b>15</b>(10):3243–3255; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27432909 27432909]; doi: [https://dx.doi.org/10.1074/mcp.M116.060681 10.1074/mcp.M116.060681]; GPMDB: [http://gpmdb.org/data/keyword/27432909 162]. |
#Vandenbrouck Y, Lane L, Carapito C, Duek P, Rondel K, Bruley C, Macron C, Gonzalez de Peredo A, Couté Y, Chaoui K, Com E, Gateau A, Hesse AM, Marcellin M, Méar L, Mouton-Barbosa E, Robin T, Burlet-Schiltz O, Cianferani S, Ferro M, Fréour T, Lindskog C, Garin J, Pineau C, (2016) "Looking for Missing Proteins in the Proteome of Human Spermatozoa: An Update." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27444420 27444420]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00400 10.1021/acs.jproteome.6b00400]; GPMDB: [http://gpmdb.org/data/keyword/27444420 108]. | #Vandenbrouck Y, Lane L, Carapito C, Duek P, Rondel K, Bruley C, Macron C, Gonzalez de Peredo A, Couté Y, Chaoui K, Com E, Gateau A, Hesse AM, Marcellin M, Méar L, Mouton-Barbosa E, Robin T, Burlet-Schiltz O, Cianferani S, Ferro M, Fréour T, Lindskog C, Garin J, Pineau C, (2016) "Looking for Missing Proteins in the Proteome of Human Spermatozoa: An Update." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27444420 27444420]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00400 10.1021/acs.jproteome.6b00400]; GPMDB: [http://gpmdb.org/data/keyword/27444420 108]. | ||
#Martinez-Val A, Garcia F, Ximénez-Embún P, Ibarz N, Zarzuela E, Ruppen I, Mohammed S, Munoz J, (2016) "On the Statistical Significance of Compressed Ratios in Isobaric Labeling: A Cross-Platform Comparison." <i>J Proteome Res</i> <b>15</b>(9):3029–38; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27452035 27452035]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00151 10.1021/acs.jproteome.6b00151]; GPMDB: [http://gpmdb.org/data/keyword/27452035 18]. | #Martinez-Val A, Garcia F, Ximénez-Embún P, Ibarz N, Zarzuela E, Ruppen I, Mohammed S, Munoz J, (2016) "On the Statistical Significance of Compressed Ratios in Isobaric Labeling: A Cross-Platform Comparison." <i>J Proteome Res</i> <b>15</b>(9):3029–38; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27452035 27452035]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00151 10.1021/acs.jproteome.6b00151]; GPMDB: [http://gpmdb.org/data/keyword/27452035 18]. | ||
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#Liu Z, Wang F, Chen J, Zhou Y, Zou H, (2016) "Modulating the selectivity of affinity absorbents to multi-phosphopeptides by a competitive substitution strategy." <i>J Chromatogr A</i> <b>1461</b>:35–41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27470094 27470094]; doi: [https://dx.doi.org/10.1016/j.chroma.2016.07.042 10.1016/j.chroma.2016.07.042]; GPMDB: [http://gpmdb.org/data/keyword/27470094 9]. | #Liu Z, Wang F, Chen J, Zhou Y, Zou H, (2016) "Modulating the selectivity of affinity absorbents to multi-phosphopeptides by a competitive substitution strategy." <i>J Chromatogr A</i> <b>1461</b>:35–41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27470094 27470094]; doi: [https://dx.doi.org/10.1016/j.chroma.2016.07.042 10.1016/j.chroma.2016.07.042]; GPMDB: [http://gpmdb.org/data/keyword/27470094 9]. | ||
#Uyy E, Suica VI, Boteanu RM, Manda D, Baciu AE, Badiu C, Antohe F, (2016) "Endoplasmic Reticulum Chaperones Are Potential Active Factors in Thyroid Tumorigenesis." <i>J Proteome Res</i> <b>15</b>(9):3377–87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27480176 27480176]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00567 10.1021/acs.jproteome.6b00567]; GPMDB: [http://gpmdb.org/data/keyword/27480176 100]. | #Uyy E, Suica VI, Boteanu RM, Manda D, Baciu AE, Badiu C, Antohe F, (2016) "Endoplasmic Reticulum Chaperones Are Potential Active Factors in Thyroid Tumorigenesis." <i>J Proteome Res</i> <b>15</b>(9):3377–87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27480176 27480176]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00567 10.1021/acs.jproteome.6b00567]; GPMDB: [http://gpmdb.org/data/keyword/27480176 100]. | ||
- | # | + | #Söderholm S, Kainov DE, Öhman T, Denisova OV, Schepens B, Kulesskiy E, Imanishi SY, Corthals G, Hintsanen P, Aittokallio T, Saelens X, Matikainen S, Nyman TA, (2016) "Phosphoproteomics to Characterize Host Response During Influenza A Virus Infection of Human Macrophages." <i>Mol Cell Proteomics</i> <b>15</b>(10):3203–3219; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27486199 27486199]; doi: [https://dx.doi.org/10.1074/mcp.M116.057984 10.1074/mcp.M116.057984]; GPMDB: [http://gpmdb.org/data/keyword/27486199 20]. |
#Deslyper G, Colgan TJ, Cooper AJ, Holland CV, Carolan JC, (2016) "A Proteomic Investigation of Hepatic Resistance to Ascaris in a Murine Model." <i>PLoS Negl Trop Dis</i> <b>10</b>(8):e0004837; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27490109 27490109]; doi: [https://dx.doi.org/10.1371/journal.pntd.0004837 10.1371/journal.pntd.0004837]; GPMDB: [http://gpmdb.org/data/keyword/27490109 12]. | #Deslyper G, Colgan TJ, Cooper AJ, Holland CV, Carolan JC, (2016) "A Proteomic Investigation of Hepatic Resistance to Ascaris in a Murine Model." <i>PLoS Negl Trop Dis</i> <b>10</b>(8):e0004837; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27490109 27490109]; doi: [https://dx.doi.org/10.1371/journal.pntd.0004837 10.1371/journal.pntd.0004837]; GPMDB: [http://gpmdb.org/data/keyword/27490109 12]. | ||
#Peltier J, Roperch JP, Audebert S, Borg JP, Camoin L, (2016) "Quantitative proteomic analysis exploring progression of colorectal cancer: Modulation of the serpin family." <i>J Proteomics</i> <b>148</b>:139–48; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27492143 27492143]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.07.031 10.1016/j.jprot.2016.07.031]; GPMDB: [http://gpmdb.org/data/keyword/27492143 2]. | #Peltier J, Roperch JP, Audebert S, Borg JP, Camoin L, (2016) "Quantitative proteomic analysis exploring progression of colorectal cancer: Modulation of the serpin family." <i>J Proteomics</i> <b>148</b>:139–48; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27492143 27492143]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.07.031 10.1016/j.jprot.2016.07.031]; GPMDB: [http://gpmdb.org/data/keyword/27492143 2]. | ||
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#Drake JM, Paull EO, Graham NA, Lee JK, Smith BA, Titz B, Stoyanova T, Faltermeier CM, Uzunangelov V, Carlin DE, Fleming DT, Wong CK, Newton Y, Sudha S, Vashisht AA, Huang J, Wohlschlegel JA, Graeber TG, Witte ON, Stuart JM, (2016) "Phosphoproteome Integration Reveals Patient-Specific Networks in Prostate Cancer." <i>Cell</i> <b>166</b>(4):1041–54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27499020 27499020]; doi: [https://dx.doi.org/10.1016/j.cell.2016.07.007 10.1016/j.cell.2016.07.007]; GPMDB: [http://gpmdb.org/data/keyword/27499020 69]. | #Drake JM, Paull EO, Graham NA, Lee JK, Smith BA, Titz B, Stoyanova T, Faltermeier CM, Uzunangelov V, Carlin DE, Fleming DT, Wong CK, Newton Y, Sudha S, Vashisht AA, Huang J, Wohlschlegel JA, Graeber TG, Witte ON, Stuart JM, (2016) "Phosphoproteome Integration Reveals Patient-Specific Networks in Prostate Cancer." <i>Cell</i> <b>166</b>(4):1041–54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27499020 27499020]; doi: [https://dx.doi.org/10.1016/j.cell.2016.07.007 10.1016/j.cell.2016.07.007]; GPMDB: [http://gpmdb.org/data/keyword/27499020 69]. | ||
#Marino F, Mommen GP, Jeko A, Meiring HD, van Gaans-van den Brink JA, Scheltema RA, van Els CA, Heck AJ, (2016) "Arginine (Di)methylated Human Leukocyte Antigen Class I Peptides Are Favorably Presented by HLA-B*07." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27503676 27503676]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00528 10.1021/acs.jproteome.6b00528]; GPMDB: [http://gpmdb.org/data/keyword/27503676 31]. | #Marino F, Mommen GP, Jeko A, Meiring HD, van Gaans-van den Brink JA, Scheltema RA, van Els CA, Heck AJ, (2016) "Arginine (Di)methylated Human Leukocyte Antigen Class I Peptides Are Favorably Presented by HLA-B*07." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27503676 27503676]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00528 10.1021/acs.jproteome.6b00528]; GPMDB: [http://gpmdb.org/data/keyword/27503676 31]. | ||
- | #Budayeva HG, Cristea IM, (2016) "Human | + | #Budayeva HG, Cristea IM, (2016) "Human Sirtuin 2 Localization, Transient Interactions, and Impact on the Proteome Point to Its Role in Intracellular Trafficking." <i>Mol Cell Proteomics</i> <b>15</b>(10):3107–3125; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27503897 27503897]; doi: [https://dx.doi.org/10.1074/mcp.M116.061333 10.1074/mcp.M116.061333]; GPMDB: [http://gpmdb.org/data/keyword/27503897 15]. |
#Swenson JM, Colmenares SU, Strom AR, Costes SV, Karpen GH, (2016) "The composition and organization of Drosophila heterochromatin are heterogeneous and dynamic." <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27514026 27514026]; doi: [https://dx.doi.org/10.7554/eLife.16096 10.7554/eLife.16096]; GPMDB: [http://gpmdb.org/data/keyword/27514026 4]. | #Swenson JM, Colmenares SU, Strom AR, Costes SV, Karpen GH, (2016) "The composition and organization of Drosophila heterochromatin are heterogeneous and dynamic." <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27514026 27514026]; doi: [https://dx.doi.org/10.7554/eLife.16096 10.7554/eLife.16096]; GPMDB: [http://gpmdb.org/data/keyword/27514026 4]. | ||
+ | #Naboulsi W, Bracht T, Megger DA, Reis H, Ahrens M, Turewicz M, Eisenacher M, Tautges S, Canbay AE, Meyer HE, Weber F, Baba HA, Sitek B, (2016) "Quantitative proteome analysis reveals the correlation between endocytosis-associated proteins and hepatocellular carcinoma dedifferentiation." <i>Biochim Biophys Acta</i> <b>1864</b>(11):1579–85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27519163 27519163]; doi: [https://dx.doi.org/10.1016/j.bbapap.2016.08.005 10.1016/j.bbapap.2016.08.005]; GPMDB: [http://gpmdb.org/data/keyword/27519163 36]. | ||
#Rasmussen MH, Lyskjær I, Jersie-Christensen RR, Tarpgaard LS, Primdal-Bengtson B, Nielsen MM, Pedersen JS, Hansen TP, Hansen F, Olsen JV, Pfeiffer P, Ørntoft TF, Andersen CL, (2016) "miR-625-3p regulates oxaliplatin resistance by targeting MAP2K6-p38 signalling in human colorectal adenocarcinoma cells." <i>Nat Commun</i> <b>7</b>:12436; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27526785 27526785]; doi: [https://dx.doi.org/10.1038/ncomms12436 10.1038/ncomms12436]; GPMDB: [http://gpmdb.org/data/keyword/27526785 24]. | #Rasmussen MH, Lyskjær I, Jersie-Christensen RR, Tarpgaard LS, Primdal-Bengtson B, Nielsen MM, Pedersen JS, Hansen TP, Hansen F, Olsen JV, Pfeiffer P, Ørntoft TF, Andersen CL, (2016) "miR-625-3p regulates oxaliplatin resistance by targeting MAP2K6-p38 signalling in human colorectal adenocarcinoma cells." <i>Nat Commun</i> <b>7</b>:12436; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27526785 27526785]; doi: [https://dx.doi.org/10.1038/ncomms12436 10.1038/ncomms12436]; GPMDB: [http://gpmdb.org/data/keyword/27526785 24]. | ||
#Liu L, Phua YW, Lee RS, Ma X, Jenkins Y, Novy K, Humphrey ES, Chan H, Shearer R, Ong PC, Dai W, Saunders DN, Lucet IS, Daly RJ, (2016) "Homo- and Heterotypic Association Regulates Signalling by the SgK269/PEAK1 and SgK223 Pseudokinases." <i>J Biol Chem</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27531744 27531744]; doi: [https://dx.doi.org/10.1074/jbc.M116.748897 10.1074/jbc.M116.748897]; GPMDB: [http://gpmdb.org/data/keyword/27531744 6]. | #Liu L, Phua YW, Lee RS, Ma X, Jenkins Y, Novy K, Humphrey ES, Chan H, Shearer R, Ong PC, Dai W, Saunders DN, Lucet IS, Daly RJ, (2016) "Homo- and Heterotypic Association Regulates Signalling by the SgK269/PEAK1 and SgK223 Pseudokinases." <i>J Biol Chem</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27531744 27531744]; doi: [https://dx.doi.org/10.1074/jbc.M116.748897 10.1074/jbc.M116.748897]; GPMDB: [http://gpmdb.org/data/keyword/27531744 6]. | ||
#Mattei B, Spinelli F, Pontiggia D, De Lorenzo G, (2016) "Comprehensive Analysis of the Membrane Phosphoproteome Regulated by Oligogalacturonides in Arabidopsis thaliana." <i>Front Plant Sci</i> <b>7</b>:1107; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27532006 27532006]; doi: [https://dx.doi.org/10.3389/fpls.2016.01107 10.3389/fpls.2016.01107]; GPMDB: [http://gpmdb.org/data/keyword/27532006 12]. | #Mattei B, Spinelli F, Pontiggia D, De Lorenzo G, (2016) "Comprehensive Analysis of the Membrane Phosphoproteome Regulated by Oligogalacturonides in Arabidopsis thaliana." <i>Front Plant Sci</i> <b>7</b>:1107; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27532006 27532006]; doi: [https://dx.doi.org/10.3389/fpls.2016.01107 10.3389/fpls.2016.01107]; GPMDB: [http://gpmdb.org/data/keyword/27532006 12]. | ||
- | #Solari FA, Mattheij NJ, Burkhart JM, Swieringa F, Collins PW, Cosemans JM, Sickmann A, Heemskerk JW, Zahedi RP, (2016) "Combined | + | #Solari FA, Mattheij NJ, Burkhart JM, Swieringa F, Collins PW, Cosemans JM, Sickmann A, Heemskerk JW, Zahedi RP, (2016) "Combined Quantification of the Global Proteome, Phosphoproteome, and Proteolytic Cleavage to Characterize Altered Platelet Functions in the Human Scott Syndrome." <i>Mol Cell Proteomics</i> <b>15</b>(10):3154–3169; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27535140 27535140]; doi: [https://dx.doi.org/10.1074/mcp.M116.060368 10.1074/mcp.M116.060368]; GPMDB: [http://gpmdb.org/data/keyword/27535140 23]. |
#Dobó J, Szakács D, Oroszlán G, Kortvely E, Kiss B, Boros E, Szász R, Závodszky P, Gál P, Pál G, (2016) "MASP-3 is the exclusive pro-factor D activator in resting blood: the lectin and the alternative complement pathways are fundamentally linked." <i>Sci Rep</i> <b>6</b>:31877; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27535802 27535802]; doi: [https://dx.doi.org/10.1038/srep31877 10.1038/srep31877]; GPMDB: [http://gpmdb.org/data/keyword/27535802 6]. | #Dobó J, Szakács D, Oroszlán G, Kortvely E, Kiss B, Boros E, Szász R, Závodszky P, Gál P, Pál G, (2016) "MASP-3 is the exclusive pro-factor D activator in resting blood: the lectin and the alternative complement pathways are fundamentally linked." <i>Sci Rep</i> <b>6</b>:31877; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27535802 27535802]; doi: [https://dx.doi.org/10.1038/srep31877 10.1038/srep31877]; GPMDB: [http://gpmdb.org/data/keyword/27535802 6]. | ||
- | #Zhang P, Karani R, Turner RL, Dufresne C, Ferri S, Van Eyk JE, Semba RD, (2016) "The proteome of normal human retrobulbar optic nerve and sclera." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27538499 27538499]; doi: [https://dx.doi.org/10.1002/pmic.201600229 10.1002/pmic.201600229]; GPMDB: [http://gpmdb.org/data/keyword/27538499 60]. | + | #Zhang P, Karani R, Turner RL, Dufresne C, Ferri S, Van Eyk JE, Semba RD, (2016) "The proteome of normal human retrobulbar optic nerve and sclera." <i>Proteomics</i> <b>16</b>(19):2592–2596; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27538499 27538499]; doi: [https://dx.doi.org/10.1002/pmic.201600229 10.1002/pmic.201600229]; GPMDB: [http://gpmdb.org/data/keyword/27538499 60]. |
- | #Walley JW, Sartor RC, Shen Z, Schmitz RJ, Wu KJ, Urich MA, Nery JR, Smith LG, Schnable JC, Ecker JR, Briggs SP, (2016) "Integration of omic networks in a developmental atlas of maize." <i>Science</i> <b>353</b>(6301):814–8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27540173 27540173]; doi: [https://dx.doi.org/10.1126/science.aag1125 10.1126/science.aag1125]; GPMDB: [http://gpmdb.org/data/keyword/27540173 | + | #Walley JW, Sartor RC, Shen Z, Schmitz RJ, Wu KJ, Urich MA, Nery JR, Smith LG, Schnable JC, Ecker JR, Briggs SP, (2016) "Integration of omic networks in a developmental atlas of maize." <i>Science</i> <b>353</b>(6301):814–8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27540173 27540173]; doi: [https://dx.doi.org/10.1126/science.aag1125 10.1126/science.aag1125]; GPMDB: [http://gpmdb.org/data/keyword/27540173 6956]. |
#He PH, Dong WX, Chu XL, Feng MG, Ying SH, (2016) "The cellular proteome is affected by a gelsolin (BbGEL1) during morphological transitions in aerobic surface versus liquid growth in the entomopathogenic fungus Beauveria bassiana." <i>Environ Microbiol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27554994 27554994]; doi: [https://dx.doi.org/10.1111/1462-2920.13500 10.1111/1462-2920.13500]; GPMDB: [http://gpmdb.org/data/keyword/27554994 34]. | #He PH, Dong WX, Chu XL, Feng MG, Ying SH, (2016) "The cellular proteome is affected by a gelsolin (BbGEL1) during morphological transitions in aerobic surface versus liquid growth in the entomopathogenic fungus Beauveria bassiana." <i>Environ Microbiol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27554994 27554994]; doi: [https://dx.doi.org/10.1111/1462-2920.13500 10.1111/1462-2920.13500]; GPMDB: [http://gpmdb.org/data/keyword/27554994 34]. | ||
- | #Viktorovskaya OV, Greco TM, Cristea IM, Thompson SR, (2016) "Identification of RNA Binding Proteins Associated with Dengue Virus RNA in Infected Cells Reveals Temporally Distinct Host Factor Requirements." <i>PLoS Negl Trop Dis</i> <b>10</b>(8):e0004921; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27556644 27556644]; doi: [https://dx.doi.org/10.1371/journal.pntd.0004921 10.1371/journal.pntd.0004921]; GPMDB: [http://gpmdb.org/data/keyword/27556644 | + | #Viktorovskaya OV, Greco TM, Cristea IM, Thompson SR, (2016) "Identification of RNA Binding Proteins Associated with Dengue Virus RNA in Infected Cells Reveals Temporally Distinct Host Factor Requirements." <i>PLoS Negl Trop Dis</i> <b>10</b>(8):e0004921; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27556644 27556644]; doi: [https://dx.doi.org/10.1371/journal.pntd.0004921 10.1371/journal.pntd.0004921]; GPMDB: [http://gpmdb.org/data/keyword/27556644 7]. |
- | #Cassidy L, Prasse D, Linke D, Schmitz RA, Tholey A, (2016) "Combination of Bottom-up 2D-LC-MS and Semi-top-down GelFree-LC-MS Enhances Coverage of Proteome and Low Molecular Weight Short Open Reading Frame Encoded Peptides of the Archaeon Methanosarcina mazei." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27557128 27557128]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00569 10.1021/acs.jproteome.6b00569]; GPMDB: [http://gpmdb.org/data/keyword/27557128 6]. | + | #Cassidy L, Prasse D, Linke D, Schmitz RA, Tholey A, (2016) "Combination of Bottom-up 2D-LC-MS and Semi-top-down GelFree-LC-MS Enhances Coverage of Proteome and Low Molecular Weight Short Open Reading Frame Encoded Peptides of the Archaeon Methanosarcina mazei." <i>J Proteome Res</i> <b>15</b>(10):3773–3783; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27557128 27557128]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00569 10.1021/acs.jproteome.6b00569]; GPMDB: [http://gpmdb.org/data/keyword/27557128 6]. |
#Ross SH, Rollings C, Anderson KE, Hawkins PT, Stephens LR, Cantrell DA, (2016) "Phosphoproteomic Analyses of Interleukin 2 Signaling Reveal Integrated JAK Kinase-Dependent and -Independent Networks in CD8(+) T Cells." <i>Immunity</i> <b>45</b>(3):685–700; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27566939 27566939]; doi: [https://dx.doi.org/10.1016/j.immuni.2016.07.022 10.1016/j.immuni.2016.07.022]; GPMDB: [http://gpmdb.org/data/keyword/27566939 208]. | #Ross SH, Rollings C, Anderson KE, Hawkins PT, Stephens LR, Cantrell DA, (2016) "Phosphoproteomic Analyses of Interleukin 2 Signaling Reveal Integrated JAK Kinase-Dependent and -Independent Networks in CD8(+) T Cells." <i>Immunity</i> <b>45</b>(3):685–700; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27566939 27566939]; doi: [https://dx.doi.org/10.1016/j.immuni.2016.07.022 10.1016/j.immuni.2016.07.022]; GPMDB: [http://gpmdb.org/data/keyword/27566939 208]. | ||
+ | #Delaveau T, Davoine D, Jolly A, Vallot A, Rouvière JO, Gerber A, Brochet S, Plessis M, Roquigny R, Merhej J, Leger T, Garcia C, Lelandais G, Laine E, Palancade B, Devaux F, Garcia M, (2016) "Tma108, a putative M1 aminopeptidase, is a specific nascent chain-associated protein in Saccharomyces cerevisiae." <i>Nucleic Acids Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27580715 27580715]; doi: [https://dx.doi.org/10.1093/nar/gkw732 10.1093/nar/gkw732]; GPMDB: [http://gpmdb.org/data/keyword/27580715 19]. | ||
+ | #Lee H, Chae S, Park J, Bae J, Go EB, Kim SJ, Kim H, Hwang D, Lee SW, Lee SY, (2016) "Comprehensive proteome profiling of platelet identified a protein profile predictive of responses to an antiplatelet agent sarpogrelate." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27601597 27601597]; doi: [https://dx.doi.org/10.1074/mcp.M116.059154 10.1074/mcp.M116.059154]; GPMDB: [http://gpmdb.org/data/keyword/27601597 96]. | ||
+ | #Lee J, McKinney KQ, Pavlopoulos AJ, Han MH, Kim SH, Kim HJ, Hwang S, (2016) "Exosomal proteome analysis of cerebrospinal fluid detects biosignatures of neuromyelitis optica and multiple sclerosis." <i>Clin Chim Acta</i> <b>462</b>:118–126; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27609124 27609124]; doi: [https://dx.doi.org/10.1016/j.cca.2016.09.001 10.1016/j.cca.2016.09.001]; GPMDB: [http://gpmdb.org/data/keyword/27609124 24]. | ||
#Goldman AR, Bitler BG, Schug Z, Conejo-Garcia JR, Zhang R, Speicher DW, (2016) "The Primary Effect on the Proteome of ARID1A-Mutated Ovarian Clear Cell Carcinoma is Downregulation of the Mevalonate Pathway at the Post-Transcriptional Level." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27654507 27654507]; doi: [https://dx.doi.org/10.1074/mcp.M116.062539 10.1074/mcp.M116.062539]; GPMDB: [http://gpmdb.org/data/keyword/27654507 12]. | #Goldman AR, Bitler BG, Schug Z, Conejo-Garcia JR, Zhang R, Speicher DW, (2016) "The Primary Effect on the Proteome of ARID1A-Mutated Ovarian Clear Cell Carcinoma is Downregulation of the Mevalonate Pathway at the Post-Transcriptional Level." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27654507 27654507]; doi: [https://dx.doi.org/10.1074/mcp.M116.062539 10.1074/mcp.M116.062539]; GPMDB: [http://gpmdb.org/data/keyword/27654507 12]. | ||
+ | #Radzikowski JL, Vedelaar S, Siegel D, Ortega ÁD, Schmidt A, Heinemann M, (2016) "Bacterial persistence is an active σS stress response to metabolic flux limitation." <i>Mol Syst Biol</i> <b>12</b>(9):882; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27655400 27655400]; GPMDB: [http://gpmdb.org/data/keyword/27655400 30]. | ||
+ | #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>; 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]. | ||
+ | #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>; 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 7]. |
GPMDB was originally constructed to serve as a reference work for all publicly available proteomics generated using tandem mass spectrometry. Public data is downloaded and reanalyzed using the current version of X! Tandem. The result files generated by the reanalysis and the relevant metadata are imported into the database and made available through the associated web site, ftp site and REST interfaces.
Contents |
The following public data repositories are checked daily for new suitable raw data for reanalysis:
Data made available from specific large projects, such as CPTAC or the Human Proteome Atlas, are also included when they are made available. Every effort is made so that reanalyzed results from all data sources are made available within 48 hours of their being released. In addition, data from lab web sites, ftp sites and direct contributions through the GPM sites made available to researchers are imported into GPMDB as part of a daily incremental update process.
GPMDB has been in operation since Jan. 1, 2004. Several large data source repositories have come into existence and ceased activity in the period since that time. All of the data from those repositories (e.g., TRANCHE, Peptidome) were reanalyzed and stored in GPMDB and they are still available even though the source repository sites are no longer active.
Simply because data is made available does not mean that it will be included in GPMDB. The data must pass our internal automated quality control tests for its initial acceptance and it may be rejected subsequently because of either quality or originality concerns.
The following is a list of data sets with associated PubMed IDs that have supplied data to the GPMDB Project through the data sources mentioned above. The list (1,245 publications) was current, as of October 9, 2016.