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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 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 was current, as of October 23, 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 Groot RE, Ganji RS, Bernatik O, Lloyd-Lewis B, Seipel K, Šedová K, Zdráhal Z, Dhople VM, Dale TC, Korswagen HC, Bryja V, (2014) "Huwe1-mediated ubiquitylation of dishevelled defines a negative feedback loop in the Wnt signaling pathway." <i>Sci Signal</i> <b>7</b>(317):ra26; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24643799 24643799]; doi: [https://dx.doi.org/10.1126/scisignal.2004985 10.1126/scisignal.2004985]; GPMDB: [http://gpmdb.org/data/keyword/24643799 10]. | #de Groot RE, Ganji RS, Bernatik O, Lloyd-Lewis B, Seipel K, Šedová K, Zdráhal Z, Dhople VM, Dale TC, Korswagen HC, Bryja V, (2014) "Huwe1-mediated ubiquitylation of dishevelled defines a negative feedback loop in the Wnt signaling pathway." <i>Sci Signal</i> <b>7</b>(317):ra26; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24643799 24643799]; doi: [https://dx.doi.org/10.1126/scisignal.2004985 10.1126/scisignal.2004985]; GPMDB: [http://gpmdb.org/data/keyword/24643799 10]. | ||
#Sahasrabuddhe NA, Barbhuiya MA, Bhunia S, Subbannayya T, Gowda H, Advani J, Shrivastav BR, Navani S, Leal P, Roa JC, Chaerkady R, Gupta S, Chatterjee A, Pandey A, Tiwari PK, (2014) "Identification of prosaposin and transgelin as potential biomarkers for gallbladder cancer using quantitative proteomics." <i>Biochem Biophys Res Commun</i> <b>446</b>(4):863–9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24657443 24657443]; doi: [https://dx.doi.org/10.1016/j.bbrc.2014.03.017 10.1016/j.bbrc.2014.03.017]; GPMDB: [http://gpmdb.org/data/keyword/24657443 29]. | #Sahasrabuddhe NA, Barbhuiya MA, Bhunia S, Subbannayya T, Gowda H, Advani J, Shrivastav BR, Navani S, Leal P, Roa JC, Chaerkady R, Gupta S, Chatterjee A, Pandey A, Tiwari PK, (2014) "Identification of prosaposin and transgelin as potential biomarkers for gallbladder cancer using quantitative proteomics." <i>Biochem Biophys Res Commun</i> <b>446</b>(4):863–9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24657443 24657443]; doi: [https://dx.doi.org/10.1016/j.bbrc.2014.03.017 10.1016/j.bbrc.2014.03.017]; GPMDB: [http://gpmdb.org/data/keyword/24657443 29]. | ||
+ | #Schwarzer C, Siatkowski M, Pfeiffer MJ, Baeumer N, Drexler HC, Wang B, Fuellen G, Boiani M, (2014) "Maternal age effect on mouse oocytes: new biological insight from proteomic analysis." <i>Reproduction</i> <b>148</b>(1):55–72; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24686459 24686459]; doi: [https://dx.doi.org/10.1530/REP-14-0126 10.1530/REP-14-0126]; GPMDB: [http://gpmdb.org/data/keyword/24686459 3]. | ||
#Kume H, Muraoka S, Kuga T, Adachi J, Narumi R, Watanabe S, Kuwano M, Kodera Y, Matsushita K, Fukuoka J, Masuda T, Ishihama Y, Matsubara H, Nomura F, Tomonaga T, (2014) "Discovery of colorectal cancer biomarker candidates by membrane proteomic analysis and subsequent verification using selected reaction monitoring (SRM) and tissue microarray (TMA) analysis." <i>Mol Cell Proteomics</i> <b>13</b>(6):1471–84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24687888 24687888]; doi: [https://dx.doi.org/10.1074/mcp.M113.037093 10.1074/mcp.M113.037093]; GPMDB: [http://gpmdb.org/data/keyword/24687888 6]. | #Kume H, Muraoka S, Kuga T, Adachi J, Narumi R, Watanabe S, Kuwano M, Kodera Y, Matsushita K, Fukuoka J, Masuda T, Ishihama Y, Matsubara H, Nomura F, Tomonaga T, (2014) "Discovery of colorectal cancer biomarker candidates by membrane proteomic analysis and subsequent verification using selected reaction monitoring (SRM) and tissue microarray (TMA) analysis." <i>Mol Cell Proteomics</i> <b>13</b>(6):1471–84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24687888 24687888]; doi: [https://dx.doi.org/10.1074/mcp.M113.037093 10.1074/mcp.M113.037093]; GPMDB: [http://gpmdb.org/data/keyword/24687888 6]. | ||
#Guo X, Trudgian DC, Lemoff A, Yadavalli S, Mirzaei H, (2014) "Confetti: a multiprotease map of the HeLa proteome for comprehensive proteomics." <i>Mol Cell Proteomics</i> <b>13</b>(6):1573–84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24696503 24696503]; doi: [https://dx.doi.org/10.1074/mcp.M113.035170 10.1074/mcp.M113.035170]; GPMDB: [http://gpmdb.org/data/keyword/24696503 99]. | #Guo X, Trudgian DC, Lemoff A, Yadavalli S, Mirzaei H, (2014) "Confetti: a multiprotease map of the HeLa proteome for comprehensive proteomics." <i>Mol Cell Proteomics</i> <b>13</b>(6):1573–84; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/24696503 24696503]; doi: [https://dx.doi.org/10.1074/mcp.M113.035170 10.1074/mcp.M113.035170]; GPMDB: [http://gpmdb.org/data/keyword/24696503 99]. | ||
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#Yu J, Storer BE, Kushekhar K, Abu Zaid M, Zhang Q, Gafken PR, Ogata Y, Martin PJ, Flowers ME, Hansen JA, Arora M, Cutler C, Jagasia M, Pidala J, Hamilton BK, Chen GL, Pusic I, Lee SJ, Paczesny S, (2016) "Biomarker Panel for Chronic Graft-Versus-Host Disease." <i>J Clin Oncol</i> <b>34</b>(22):2583–90; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27217465 27217465]; doi: [https://dx.doi.org/10.1200/JCO.2015.65.9615 10.1200/JCO.2015.65.9615]; GPMDB: [http://gpmdb.org/data/keyword/27217465 3]. | #Yu J, Storer BE, Kushekhar K, Abu Zaid M, Zhang Q, Gafken PR, Ogata Y, Martin PJ, Flowers ME, Hansen JA, Arora M, Cutler C, Jagasia M, Pidala J, Hamilton BK, Chen GL, Pusic I, Lee SJ, Paczesny S, (2016) "Biomarker Panel for Chronic Graft-Versus-Host Disease." <i>J Clin Oncol</i> <b>34</b>(22):2583–90; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27217465 27217465]; doi: [https://dx.doi.org/10.1200/JCO.2015.65.9615 10.1200/JCO.2015.65.9615]; GPMDB: [http://gpmdb.org/data/keyword/27217465 3]. | ||
#Wang B, Pfeiffer MJ, Drexler HC, Fuellen G, Boiani M, (2016) "Proteomic Analysis of Mouse Oocytes Identifies PRMT7 as a Reprogramming Factor that Replaces SOX2 in the Induction of Pluripotent Stem Cells." <i>J Proteome Res</i> <b>15</b>(8):2407–21; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27225728 27225728]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b01083 10.1021/acs.jproteome.5b01083]; GPMDB: [http://gpmdb.org/data/keyword/27225728 14]. | #Wang B, Pfeiffer MJ, Drexler HC, Fuellen G, Boiani M, (2016) "Proteomic Analysis of Mouse Oocytes Identifies PRMT7 as a Reprogramming Factor that Replaces SOX2 in the Induction of Pluripotent Stem Cells." <i>J Proteome Res</i> <b>15</b>(8):2407–21; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27225728 27225728]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b01083 10.1021/acs.jproteome.5b01083]; GPMDB: [http://gpmdb.org/data/keyword/27225728 14]. | ||
- | #Lidbury ID, Murphy AR, Scanlan DJ, Bending GD, Jones AM, Moore JD, Goodall A, Hammond JP, Wellington EM, (2016) "Comparative genomic, proteomic and exoproteomic analyses of three Pseudomonas strains reveals novel insights into the phosphorus scavenging capabilities of soil bacteria." <i>Environ Microbiol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27233093 27233093]; doi: [https://dx.doi.org/10.1111/1462-2920.13390 10.1111/1462-2920.13390]; GPMDB: [http://gpmdb.org/data/keyword/27233093 162]. | + | #Lidbury ID, Murphy AR, Scanlan DJ, Bending GD, Jones AM, Moore JD, Goodall A, Hammond JP, Wellington EM, (2016) "Comparative genomic, proteomic and exoproteomic analyses of three Pseudomonas strains reveals novel insights into the phosphorus scavenging capabilities of soil bacteria." <i>Environ Microbiol</i> <b>18</b>(10):3535–3549; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27233093 27233093]; doi: [https://dx.doi.org/10.1111/1462-2920.13390 10.1111/1462-2920.13390]; GPMDB: [http://gpmdb.org/data/keyword/27233093 162]. |
#Lobas AA, Karpov DS, Kopylov AT, Solovyeva EM, Ivanov MV, Ilina IY, Lazarev VN, Kuznetsova KG, Ilgisonis EV, Zgoda VG, Gorshkov MV, Moshkovskii SA, (2016) "Exome-based proteogenomics of HEK-293 human cell line: Coding genomic variants identified at the level of shotgun proteome." <i>Proteomics</i> <b>16</b>(14):1980–91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27233776 27233776]; doi: [https://dx.doi.org/10.1002/pmic.201500349 10.1002/pmic.201500349]; GPMDB: [http://gpmdb.org/data/keyword/27233776 7]. | #Lobas AA, Karpov DS, Kopylov AT, Solovyeva EM, Ivanov MV, Ilina IY, Lazarev VN, Kuznetsova KG, Ilgisonis EV, Zgoda VG, Gorshkov MV, Moshkovskii SA, (2016) "Exome-based proteogenomics of HEK-293 human cell line: Coding genomic variants identified at the level of shotgun proteome." <i>Proteomics</i> <b>16</b>(14):1980–91; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27233776 27233776]; doi: [https://dx.doi.org/10.1002/pmic.201500349 10.1002/pmic.201500349]; GPMDB: [http://gpmdb.org/data/keyword/27233776 7]. | ||
#Lodrini M, Poschmann G, Schmidt V, Wünschel J, Dreidax D, Witt O, Höfer T, Meyer HE, Stühler K, Eggert A, Deubzer HE, (2016) "Minichromosome Maintenance Complex Is a Critical Node in the miR-183 Signaling Network of MYCN-Amplified Neuroblastoma Cells." <i>J Proteome Res</i> <b>15</b>(7):2178–86; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27239679 27239679]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00134 10.1021/acs.jproteome.6b00134]; GPMDB: [http://gpmdb.org/data/keyword/27239679 12]. | #Lodrini M, Poschmann G, Schmidt V, Wünschel J, Dreidax D, Witt O, Höfer T, Meyer HE, Stühler K, Eggert A, Deubzer HE, (2016) "Minichromosome Maintenance Complex Is a Critical Node in the miR-183 Signaling Network of MYCN-Amplified Neuroblastoma Cells." <i>J Proteome Res</i> <b>15</b>(7):2178–86; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27239679 27239679]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00134 10.1021/acs.jproteome.6b00134]; GPMDB: [http://gpmdb.org/data/keyword/27239679 12]. | ||
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#Carrier M, Joint M, Lutzing R, Page A, Rochette-Egly C, (2016) "Phosphoproteome and Transcriptome of RA-Responsive and RA-Resistant Breast Cancer Cell Lines." <i>PLoS One</i> <b>11</b>(6):e0157290; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27362937 27362937]; doi: [https://dx.doi.org/10.1371/journal.pone.0157290 10.1371/journal.pone.0157290]; GPMDB: [http://gpmdb.org/data/keyword/27362937 6]. | #Carrier M, Joint M, Lutzing R, Page A, Rochette-Egly C, (2016) "Phosphoproteome and Transcriptome of RA-Responsive and RA-Resistant Breast Cancer Cell Lines." <i>PLoS One</i> <b>11</b>(6):e0157290; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27362937 27362937]; doi: [https://dx.doi.org/10.1371/journal.pone.0157290 10.1371/journal.pone.0157290]; GPMDB: [http://gpmdb.org/data/keyword/27362937 6]. | ||
#Pettersen VK, Mosevoll KA, Lindemann PC, Wiker HG, (2016) "Coordination of Metabolism and Virulence Factors Expression of Extraintestinal Pathogenic Escherichia coli Purified from Blood Cultures of Patients with Sepsis." <i>Mol Cell Proteomics</i> <b>15</b>(9):2890–907; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27364158 27364158]; doi: [https://dx.doi.org/10.1074/mcp.M116.060582 10.1074/mcp.M116.060582]; GPMDB: [http://gpmdb.org/data/keyword/27364158 90]. | #Pettersen VK, Mosevoll KA, Lindemann PC, Wiker HG, (2016) "Coordination of Metabolism and Virulence Factors Expression of Extraintestinal Pathogenic Escherichia coli Purified from Blood Cultures of Patients with Sepsis." <i>Mol Cell Proteomics</i> <b>15</b>(9):2890–907; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27364158 27364158]; doi: [https://dx.doi.org/10.1074/mcp.M116.060582 10.1074/mcp.M116.060582]; GPMDB: [http://gpmdb.org/data/keyword/27364158 90]. | ||
- | #Luo Y, Jacobs EY, Greco TM, Mohammed KD, Tong T, Keegan S, Binley JM, Cristea IM, Fenyö D, Rout MP, Chait BT, Muesing MA, (2016) "HIV-host interactome revealed directly from infected cells." <i>Nat Microbiol</i> <b>1</b>(7):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27375898 27375898]; doi: [https://dx.doi.org/10.1038/nmicrobiol.2016.68 10.1038/nmicrobiol.2016.68]; GPMDB: [http://gpmdb.org/data/keyword/27375898 53]. | + | #Luo Y, Jacobs EY, Greco TM, Mohammed KD, Tong T, Keegan S, Binley JM, Cristea IM, Fenyö D, Rout MP, Chait BT, Muesing MA, (2016) "HIV-host interactome revealed directly from infected cells." <i>Nat Microbiol</i> <b>1</b>(7):16068; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27375898 27375898]; doi: [https://dx.doi.org/10.1038/nmicrobiol.2016.68 10.1038/nmicrobiol.2016.68]; GPMDB: [http://gpmdb.org/data/keyword/27375898 53]. |
#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]. | ||
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#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> <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]. | #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 9190]. |
#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 7]. | #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]. | ||
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#Jiang Y, Lee J, Lee JH, Lee JW, Kim JH, Choi WH, Yoo YD, Cha-Molstad H, Kim BY, Kwon YT, Noh SA, Kim KP, Lee MJ, (2016) "The arginylation branch of the N-end rule pathway positively regulates cellular autophagic flux and clearance of proteotoxic proteins." <i>Autophagy</i> <b></b>:1–16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27560450 27560450]; doi: [https://dx.doi.org/10.1080/15548627.2016.1222991 10.1080/15548627.2016.1222991]; GPMDB: [http://gpmdb.org/data/keyword/27560450 2]. | #Jiang Y, Lee J, Lee JH, Lee JW, Kim JH, Choi WH, Yoo YD, Cha-Molstad H, Kim BY, Kwon YT, Noh SA, Kim KP, Lee MJ, (2016) "The arginylation branch of the N-end rule pathway positively regulates cellular autophagic flux and clearance of proteotoxic proteins." <i>Autophagy</i> <b></b>:1–16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27560450 27560450]; doi: [https://dx.doi.org/10.1080/15548627.2016.1222991 10.1080/15548627.2016.1222991]; GPMDB: [http://gpmdb.org/data/keyword/27560450 2]. | ||
#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]. | ||
- | #Larsen SC, Sylvestersen KB, Mund A, Lyon D, Mullari M, Madsen MV, Daniel JA, Jensen LJ, Nielsen ML, (2016) "Proteome-wide analysis of arginine monomethylation reveals widespread occurrence in human cells." <i>Sci Signal</i> <b>9</b>(443):rs9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27577262 27577262]; doi: [https://dx.doi.org/10.1126/scisignal.aaf7329 10.1126/scisignal.aaf7329]; GPMDB: [http://gpmdb.org/data/keyword/27577262 | + | #Larsen SC, Sylvestersen KB, Mund A, Lyon D, Mullari M, Madsen MV, Daniel JA, Jensen LJ, Nielsen ML, (2016) "Proteome-wide analysis of arginine monomethylation reveals widespread occurrence in human cells." <i>Sci Signal</i> <b>9</b>(443):rs9; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27577262 27577262]; doi: [https://dx.doi.org/10.1126/scisignal.aaf7329 10.1126/scisignal.aaf7329]; GPMDB: [http://gpmdb.org/data/keyword/27577262 9]. |
- | #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]. | + | #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> <b>44</b>(18):8826–8841; 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 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]. | ||
+ | #Treitz C, Enjalbert B, Portais JC, Letisse F, Tholey A, (2016) "Differential quantitative proteome analysis of Escherichia coli grown on acetate versus glucose." <i>Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27604403 27604403]; doi: [https://dx.doi.org/10.1002/pmic.201600303 10.1002/pmic.201600303]; GPMDB: [http://gpmdb.org/data/keyword/27604403 42]. | ||
#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]. | #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]. | ||
+ | #Subramanian S, Souleimanov A, Smith DL, (2016) "Proteomic Studies on the Effects of Lipo-Chitooligosaccharide and Thuricin 17 under Unstressed and Salt Stressed Conditions in Arabidopsis thaliana." <i>Front Plant Sci</i> <b>7</b>:1314; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27625672 27625672]; doi: [https://dx.doi.org/10.3389/fpls.2016.01314 10.3389/fpls.2016.01314]; GPMDB: [http://gpmdb.org/data/keyword/27625672 36]. | ||
#Bennike TB, Ellingsen T, Glerup H, Bonderup OK, Carlsen TG, Meyer MK, Bøgsted M, Christiansen G, Birkelund S, Andersen V, Stensballe A, (2016) "Proteome Analysis of Rheumatoid Arthritis Gut Mucosa." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27627584 27627584]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00598 10.1021/acs.jproteome.6b00598]; GPMDB: [http://gpmdb.org/data/keyword/27627584 33]. | #Bennike TB, Ellingsen T, Glerup H, Bonderup OK, Carlsen TG, Meyer MK, Bøgsted M, Christiansen G, Birkelund S, Andersen V, Stensballe A, (2016) "Proteome Analysis of Rheumatoid Arthritis Gut Mucosa." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27627584 27627584]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00598 10.1021/acs.jproteome.6b00598]; GPMDB: [http://gpmdb.org/data/keyword/27627584 33]. | ||
+ | #Musunuri S, Khoonsari PE, Mikus M, Wetterhall M, Häggmark-Mänberg A, Lannfelt L, Erlandsson A, Bergquist J, Ingelsson M, Shevchenko G, Nilsson P, Kultima K, (2016) "Increased Levels of Extracellular Microvesicle Markers and Decreased Levels of Endocytic/Exocytic Proteins in the Alzheimer's Disease Brain." <i>J Alzheimers Dis</i> <b>54</b>(4):1671–1686; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27636840 27636840]; doi: [https://dx.doi.org/10.3233/JAD-160271 10.3233/JAD-160271]; GPMDB: [http://gpmdb.org/data/keyword/27636840 107]. | ||
#Athanason MG, Stevens SM Jr, Burkhardt BR, (2016) "Hepatic SILAC proteomic data from PANDER transgenic model." <i>Data Brief</i> <b>9</b>:159–62; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27642623 27642623]; doi: [https://dx.doi.org/10.1016/j.dib.2016.08.017 10.1016/j.dib.2016.08.017]; GPMDB: [http://gpmdb.org/data/keyword/27642623 18]. | #Athanason MG, Stevens SM Jr, Burkhardt BR, (2016) "Hepatic SILAC proteomic data from PANDER transgenic model." <i>Data Brief</i> <b>9</b>:159–62; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27642623 27642623]; doi: [https://dx.doi.org/10.1016/j.dib.2016.08.017 10.1016/j.dib.2016.08.017]; GPMDB: [http://gpmdb.org/data/keyword/27642623 18]. | ||
#Kubicek-Sutherland JZ, Lofton H, Vestergaard M, Hjort K, Ingmer H, Andersson DI, (2016) "Antimicrobial peptide exposure selects for Staphylococcus aureus resistance to human defence peptides." <i>J Antimicrob Chemother</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27650186 27650186]; doi: [https://dx.doi.org/10.1093/jac/dkw381 10.1093/jac/dkw381]; GPMDB: [http://gpmdb.org/data/keyword/27650186 42]. | #Kubicek-Sutherland JZ, Lofton H, Vestergaard M, Hjort K, Ingmer H, Andersson DI, (2016) "Antimicrobial peptide exposure selects for Staphylococcus aureus resistance to human defence peptides." <i>J Antimicrob Chemother</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27650186 27650186]; doi: [https://dx.doi.org/10.1093/jac/dkw381 10.1093/jac/dkw381]; GPMDB: [http://gpmdb.org/data/keyword/27650186 42]. | ||
#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]. | #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 | + | #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> <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]. | ||
- | #Gautier V, Cayrol C, Farache D, Roga S, Monsarrat B, Burlet-Schiltz O, Gonzalez de Peredo A, Girard JP, (2016) "Extracellular IL-33 cytokine, but not endogenous nuclear IL-33, regulates protein expression in endothelial cells." <i>Sci Rep</i> <b>6</b>:34255; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27694941 27694941]; doi: [https://dx.doi.org/10.1038/srep34255 10.1038/srep34255]; GPMDB: [http://gpmdb.org/data/keyword/27694941 | + | #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>; 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 4]. |
+ | #Martello R, Leutert M, Jungmichel S, Bilan V, Larsen SC, Young C, Hottiger MO, Nielsen ML, (2016) "Proteome-wide identification of the endogenous ADP-ribosylome of mammalian cells and tissue." <i>Nat Commun</i> <b>7</b>:12917; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27686526 27686526]; doi: [https://dx.doi.org/10.1038/ncomms12917 10.1038/ncomms12917]; GPMDB: [http://gpmdb.org/data/keyword/27686526 15]. | ||
+ | #Greenwood EJ, Matheson NJ, Wals K, van den Boomen DJ, Antrobus R, Williamson JC, Lehner PJ, (2016) "Temporal proteomic analysis of HIV infection reveals remodelling of the host phosphoproteome by lentiviral Vif variants." <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27690223 27690223]; doi: [https://dx.doi.org/10.7554/eLife.18296 10.7554/eLife.18296]; GPMDB: [http://gpmdb.org/data/keyword/27690223 10]. | ||
+ | #Gautier V, Cayrol C, Farache D, Roga S, Monsarrat B, Burlet-Schiltz O, Gonzalez de Peredo A, Girard JP, (2016) "Extracellular IL-33 cytokine, but not endogenous nuclear IL-33, regulates protein expression in endothelial cells." <i>Sci Rep</i> <b>6</b>:34255; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27694941 27694941]; doi: [https://dx.doi.org/10.1038/srep34255 10.1038/srep34255]; GPMDB: [http://gpmdb.org/data/keyword/27694941 252]. | ||
#Kwon OK, Kim SJ, Lee S, (2016) "Global proteomic analysis of lysine acetylation in zebrafish (Danio rerio) embryos." <i>Electrophoresis</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27696471 27696471]; doi: [https://dx.doi.org/10.1002/elps.201600210 10.1002/elps.201600210]; GPMDB: [http://gpmdb.org/data/keyword/27696471 2]. | #Kwon OK, Kim SJ, Lee S, (2016) "Global proteomic analysis of lysine acetylation in zebrafish (Danio rerio) embryos." <i>Electrophoresis</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27696471 27696471]; doi: [https://dx.doi.org/10.1002/elps.201600210 10.1002/elps.201600210]; GPMDB: [http://gpmdb.org/data/keyword/27696471 2]. | ||
+ | #Witzke KE, Rosowski K, Müller C, Ahrens M, Eisenacher M, Megger DA, Knobloch J, Koch AR, Bracht T, Sitek B, (2016) "Quantitative Secretome Analysis of Activated Jurkat Cells using Click Chemistry-Based Enrichment of Secreted Glycoproteins." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27696881 27696881]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00575 10.1021/acs.jproteome.6b00575]; GPMDB: [http://gpmdb.org/data/keyword/27696881 82]. | ||
#Baas R, Sijm A, van Teeffelen HA, van Es R, Vos HR, Timmers HT, (2016) "Quantitative Proteomics of the SMAD (Suppressor of Mothers Against Decapentaplegic) Transcription Factor Family Identifies Importin 5 as a Bone Morphogenic Protein Receptor-SMAD specific Importin." <i>J Biol Chem</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27703004 27703004]; doi: [https://dx.doi.org/10.1074/jbc.M116.748582 10.1074/jbc.M116.748582]; GPMDB: [http://gpmdb.org/data/keyword/27703004 108]. | #Baas R, Sijm A, van Teeffelen HA, van Es R, Vos HR, Timmers HT, (2016) "Quantitative Proteomics of the SMAD (Suppressor of Mothers Against Decapentaplegic) Transcription Factor Family Identifies Importin 5 as a Bone Morphogenic Protein Receptor-SMAD specific Importin." <i>J Biol Chem</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27703004 27703004]; doi: [https://dx.doi.org/10.1074/jbc.M116.748582 10.1074/jbc.M116.748582]; GPMDB: [http://gpmdb.org/data/keyword/27703004 108]. | ||
+ | #Hughes CS, McConechy MK, Cochrane DR, Nazeran T, Karnezis AN, Huntsman DG, Morin GB, (2016) "Quantitative Profiling of Single Formalin Fixed Tumour Sections: proteomics for translational research." <i>Sci Rep</i> <b>6</b>:34949; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27713570 27713570]; doi: [https://dx.doi.org/10.1038/srep34949 10.1038/srep34949]; GPMDB: [http://gpmdb.org/data/keyword/27713570 40]. | ||
+ | #Sivadasan R, Hornburg D, Drepper C, Frank N, Jablonka S, Hansel A, Lojewski X, Sterneckert J, Hermann A, Shaw PJ, Ince PG, Mann M, Meissner F, Sendtner M, (2016) "C9ORF72 interaction with cofilin modulates actin dynamics in motor neurons." <i>Nat Neurosci</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27723745 27723745]; doi: [https://dx.doi.org/10.1038/nn.4407 10.1038/nn.4407]; GPMDB: [http://gpmdb.org/data/keyword/27723745 6]. | ||
+ | #Wang Q, Drouin EE, Yao C, Zhang J, Huang Y, Leon DR, Steere AC, Costello CE, (2016) "Immunogenic HLA-DR-Presented Self-Peptides Identified Directly from Clinical Samples of Synovial Tissue, Synovial Fluid, or Peripheral Blood in Patients with Rheumatoid Arthritis or Lyme Arthritis." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27726376 27726376]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00386 10.1021/acs.jproteome.6b00386]; GPMDB: [http://gpmdb.org/data/keyword/27726376 61]. |
GPMDB was originally constructed to serve as a reference work for all publicly available proteomics generated using tandem mass spectrometry. Public data is downloaded and reanalyzed using the current version of X! Tandem. The result files generated by the reanalysis and the relevant metadata are imported into the database and made available through the associated web site, ftp site and REST interfaces.
Contents |
The following public data repositories are checked daily for new suitable raw data for reanalysis:
Data made available from specific large projects, such as CPTAC or the Human Proteome Atlas, are also included when they are made available. Every effort is made so that reanalyzed results from all data sources are made available within 48 hours of their being released. In addition, data from lab web sites, ftp sites and direct contributions through the GPM sites made available to researchers are imported into GPMDB as part of a daily incremental update process.
GPMDB has been in operation since Jan. 1, 2004. Several large data source repositories have come into existence and ceased activity in the period since that time. All of the data from those repositories (e.g., TRANCHE, Peptidome) were reanalyzed and stored in GPMDB and they are still available even though the source repository sites are no longer active.
Simply because data is made available does not mean that it will be included in GPMDB. The data must pass our internal automated quality control tests for its initial acceptance and it may be rejected subsequently because of either quality or originality concerns.
The following is a list of data sets with associated PubMed IDs that have supplied data to the GPMDB Project through the data sources mentioned above. The list was current, as of October 23, 2016.