Line 524: | Line 524: | ||
#Krishnappa L, Dreisbach A, Otto A, Goosens VJ, Cranenburgh RM, Harwood CR, Becher D, van Dijl JM, (2013) "Extracytoplasmic proteases determining the cleavage and release of secreted proteins, lipoproteins, and membrane proteins in Bacillus subtilis." <i>J Proteome Res</i> <b>12</b>(9):4101–10; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23937099 23937099]; doi: [https://dx.doi.org/10.1021/pr400433h 10.1021/pr400433h]; GPMDB: [http://gpmdb.org/data/keyword/23937099 112]. | #Krishnappa L, Dreisbach A, Otto A, Goosens VJ, Cranenburgh RM, Harwood CR, Becher D, van Dijl JM, (2013) "Extracytoplasmic proteases determining the cleavage and release of secreted proteins, lipoproteins, and membrane proteins in Bacillus subtilis." <i>J Proteome Res</i> <b>12</b>(9):4101–10; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23937099 23937099]; doi: [https://dx.doi.org/10.1021/pr400433h 10.1021/pr400433h]; GPMDB: [http://gpmdb.org/data/keyword/23937099 112]. | ||
#Han D, Moon S, Kim Y, Kim J, Jin J, Kim Y, (2013) "In-depth proteomic analysis of mouse microglia using a combination of FASP and StageTip-based, high pH, reversed-phase fractionation." <i>Proteomics</i> <b>13</b>(20):2984–8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23943505 23943505]; doi: [https://dx.doi.org/10.1002/pmic.201300091 10.1002/pmic.201300091]; GPMDB: [http://gpmdb.org/data/keyword/23943505 36]. | #Han D, Moon S, Kim Y, Kim J, Jin J, Kim Y, (2013) "In-depth proteomic analysis of mouse microglia using a combination of FASP and StageTip-based, high pH, reversed-phase fractionation." <i>Proteomics</i> <b>13</b>(20):2984–8; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23943505 23943505]; doi: [https://dx.doi.org/10.1002/pmic.201300091 10.1002/pmic.201300091]; GPMDB: [http://gpmdb.org/data/keyword/23943505 36]. | ||
+ | #Edwards AV, Edwards GJ, Schwämmle V, Saxtorph H, Larsen MR, (2014) "Spatial and temporal effects in protein post-translational modification distributions in the developing mouse brain." <i>J Proteome Res</i> <b>13</b>(1):260–7; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23947802 23947802]; doi: [https://dx.doi.org/10.1021/pr4002977 10.1021/pr4002977]; GPMDB: [http://gpmdb.org/data/keyword/23947802 11]. | ||
#Ulrich C, Quilici DR, Schlauch KA, Buxton IL, (2013) "The human uterine smooth muscle S-nitrosoproteome fingerprint in pregnancy, labor, and preterm labor." <i>Am J Physiol Cell Physiol</i> <b>305</b>(8):C803–16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23948706 23948706]; doi: [https://dx.doi.org/10.1152/ajpcell.00198.2013 10.1152/ajpcell.00198.2013]; GPMDB: [http://gpmdb.org/data/keyword/23948706 9]. | #Ulrich C, Quilici DR, Schlauch KA, Buxton IL, (2013) "The human uterine smooth muscle S-nitrosoproteome fingerprint in pregnancy, labor, and preterm labor." <i>Am J Physiol Cell Physiol</i> <b>305</b>(8):C803–16; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23948706 23948706]; doi: [https://dx.doi.org/10.1152/ajpcell.00198.2013 10.1152/ajpcell.00198.2013]; GPMDB: [http://gpmdb.org/data/keyword/23948706 9]. | ||
#Liu NQ, Dekker LJ, Stingl C, Güzel C, De Marchi T, Martens JW, Foekens JA, Luider TM, Umar A, (2013) "Quantitative proteomic analysis of microdissected breast cancer tissues: comparison of label-free and SILAC-based quantification with shotgun, directed, and targeted MS approaches." <i>J Proteome Res</i> <b>12</b>(10):4627–41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23957277 23957277]; doi: [https://dx.doi.org/10.1021/pr4005794 10.1021/pr4005794]; GPMDB: [http://gpmdb.org/data/keyword/23957277 57]. | #Liu NQ, Dekker LJ, Stingl C, Güzel C, De Marchi T, Martens JW, Foekens JA, Luider TM, Umar A, (2013) "Quantitative proteomic analysis of microdissected breast cancer tissues: comparison of label-free and SILAC-based quantification with shotgun, directed, and targeted MS approaches." <i>J Proteome Res</i> <b>12</b>(10):4627–41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/23957277 23957277]; doi: [https://dx.doi.org/10.1021/pr4005794 10.1021/pr4005794]; GPMDB: [http://gpmdb.org/data/keyword/23957277 57]. | ||
Line 863: | Line 864: | ||
#Bennike TB, Carlsen TG, Ellingsen T, Bonderup OK, Glerup H, Bøgsted M, Christiansen G, Birkelund S, Stensballe A, Andersen V, (2015) "Neutrophil Extracellular Traps in Ulcerative Colitis: A Proteome Analysis of Intestinal Biopsies." <i>Inflamm Bowel Dis</i> <b>21</b>(9):2052–67; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25993694 25993694]; doi: [https://dx.doi.org/10.1097/MIB.0000000000000460 10.1097/MIB.0000000000000460]; GPMDB: [http://gpmdb.org/data/keyword/25993694 60]. | #Bennike TB, Carlsen TG, Ellingsen T, Bonderup OK, Glerup H, Bøgsted M, Christiansen G, Birkelund S, Stensballe A, Andersen V, (2015) "Neutrophil Extracellular Traps in Ulcerative Colitis: A Proteome Analysis of Intestinal Biopsies." <i>Inflamm Bowel Dis</i> <b>21</b>(9):2052–67; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25993694 25993694]; doi: [https://dx.doi.org/10.1097/MIB.0000000000000460 10.1097/MIB.0000000000000460]; GPMDB: [http://gpmdb.org/data/keyword/25993694 60]. | ||
#Kharlampieva D, Manuvera V, Podgorny O, Grafskaia E, Kovalchuk S, Pobeguts O, Altukhov I, Govorun V, Lazarev V, (2015) "Recombinant fragilysin isoforms cause E-cadherin cleavage of intact cells and do not cleave isolated E-cadherin." <i>Microb Pathog</i> <b>83-84</b>:47–56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25998017 25998017]; doi: [https://dx.doi.org/10.1016/j.micpath.2015.05.003 10.1016/j.micpath.2015.05.003]; GPMDB: [http://gpmdb.org/data/keyword/25998017 23]. | #Kharlampieva D, Manuvera V, Podgorny O, Grafskaia E, Kovalchuk S, Pobeguts O, Altukhov I, Govorun V, Lazarev V, (2015) "Recombinant fragilysin isoforms cause E-cadherin cleavage of intact cells and do not cleave isolated E-cadherin." <i>Microb Pathog</i> <b>83-84</b>:47–56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/25998017 25998017]; doi: [https://dx.doi.org/10.1016/j.micpath.2015.05.003 10.1016/j.micpath.2015.05.003]; GPMDB: [http://gpmdb.org/data/keyword/25998017 23]. | ||
+ | #Chen Y, Yang F, Sun Z, Wang Q, Mi K, Deng H, (2015) "Proteomic Analysis of Drug-Resistant Mycobacteria: Co-Evolution of Copper and INH Resistance." <i>PLoS One</i> <b>10</b>(6):e0127788; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26035302 26035302]; doi: [https://dx.doi.org/10.1371/journal.pone.0127788 10.1371/journal.pone.0127788]; GPMDB: [http://gpmdb.org/data/keyword/26035302 1]. | ||
#Aeberhard L, Banhart S, Fischer M, Jehmlich N, Rose L, Koch S, Laue M, Renard BY, Schmidt F, Heuer D, (2015) "The Proteome of the Isolated Chlamydia trachomatis Containing Vacuole Reveals a Complex Trafficking Platform Enriched for Retromer Components." <i>PLoS Pathog</i> <b>11</b>(6):e1004883; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26042774 26042774]; doi: [https://dx.doi.org/10.1371/journal.ppat.1004883 10.1371/journal.ppat.1004883]; GPMDB: [http://gpmdb.org/data/keyword/26042774 24]. | #Aeberhard L, Banhart S, Fischer M, Jehmlich N, Rose L, Koch S, Laue M, Renard BY, Schmidt F, Heuer D, (2015) "The Proteome of the Isolated Chlamydia trachomatis Containing Vacuole Reveals a Complex Trafficking Platform Enriched for Retromer Components." <i>PLoS Pathog</i> <b>11</b>(6):e1004883; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26042774 26042774]; doi: [https://dx.doi.org/10.1371/journal.ppat.1004883 10.1371/journal.ppat.1004883]; GPMDB: [http://gpmdb.org/data/keyword/26042774 24]. | ||
#Marie P, Labas V, Brionne A, Harichaux G, Hennequet-Antier C, Rodriguez-Navarro AB, Nys Y, Gautron J, (2015) "Quantitative proteomics provides new insights into chicken eggshell matrix protein functions during the primary events of mineralisation and the active calcification phase." <i>J Proteomics</i> <b>126</b>:140–54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26049031 26049031]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.05.034 10.1016/j.jprot.2015.05.034]; GPMDB: [http://gpmdb.org/data/keyword/26049031 180]. | #Marie P, Labas V, Brionne A, Harichaux G, Hennequet-Antier C, Rodriguez-Navarro AB, Nys Y, Gautron J, (2015) "Quantitative proteomics provides new insights into chicken eggshell matrix protein functions during the primary events of mineralisation and the active calcification phase." <i>J Proteomics</i> <b>126</b>:140–54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26049031 26049031]; doi: [https://dx.doi.org/10.1016/j.jprot.2015.05.034 10.1016/j.jprot.2015.05.034]; GPMDB: [http://gpmdb.org/data/keyword/26049031 180]. | ||
Line 945: | Line 947: | ||
#Liu T, Tian CF, Chen WX, (2015) "Site-Specific Ser/Thr/Tyr Phosphoproteome of Sinorhizobium meliloti at Stationary Phase." <i>PLoS One</i> <b>10</b>(9):e0139143; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26401955 26401955]; doi: [https://dx.doi.org/10.1371/journal.pone.0139143 10.1371/journal.pone.0139143]; GPMDB: [http://gpmdb.org/data/keyword/26401955 2]. | #Liu T, Tian CF, Chen WX, (2015) "Site-Specific Ser/Thr/Tyr Phosphoproteome of Sinorhizobium meliloti at Stationary Phase." <i>PLoS One</i> <b>10</b>(9):e0139143; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26401955 26401955]; doi: [https://dx.doi.org/10.1371/journal.pone.0139143 10.1371/journal.pone.0139143]; GPMDB: [http://gpmdb.org/data/keyword/26401955 2]. | ||
#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]. | ||
- | #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 534]. |
#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]. | ||
Line 1,047: | Line 1,049: | ||
#Chen Z, Tran M, Tang M, Wang W, Gong Z, Chen J, (2016) "Proteomic Analysis Reveals a Novel MutS Partner Involved in Mismatch Repair Pathway." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26828036 26828036]; doi: [https://dx.doi.org/10.1074/mcp.M115.056093 10.1074/mcp.M115.056093]; GPMDB: [http://gpmdb.org/data/keyword/26828036 22]. | #Chen Z, Tran M, Tang M, Wang W, Gong Z, Chen J, (2016) "Proteomic Analysis Reveals a Novel MutS Partner Involved in Mismatch Repair Pathway." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26828036 26828036]; doi: [https://dx.doi.org/10.1074/mcp.M115.056093 10.1074/mcp.M115.056093]; GPMDB: [http://gpmdb.org/data/keyword/26828036 22]. | ||
#Lichtman JS, Ferreyra JA, Ng KM, Smits SA, Sonnenburg JL, Elias JE, (2016) "Host-Microbiota Interactions in the Pathogenesis of Antibiotic-Associated Diseases." <i>Cell Rep</i> <b>14</b>(5):1049–61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26832403 26832403]; doi: [https://dx.doi.org/10.1016/j.celrep.2016.01.009 10.1016/j.celrep.2016.01.009]; GPMDB: [http://gpmdb.org/data/keyword/26832403 486]. | #Lichtman JS, Ferreyra JA, Ng KM, Smits SA, Sonnenburg JL, Elias JE, (2016) "Host-Microbiota Interactions in the Pathogenesis of Antibiotic-Associated Diseases." <i>Cell Rep</i> <b>14</b>(5):1049–61; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26832403 26832403]; doi: [https://dx.doi.org/10.1016/j.celrep.2016.01.009 10.1016/j.celrep.2016.01.009]; GPMDB: [http://gpmdb.org/data/keyword/26832403 486]. | ||
- | #Lechman ER, Gentner B, Ng SW, Schoof EM, van Galen P, Kennedy JA, Nucera S, Ciceri F, Kaufmann KB, Takayama N, Dobson SM, Trotman-Grant A, Krivdova G, Elzinga J, Mitchell A, Nilsson B, Hermans KG, Eppert K, Marke R, Isserlin R, Voisin V, Bader GD, Zandstra PW, Golub TR, Ebert BL, Lu J, Minden M, Wang JC, Naldini L, Dick JE, (2016) "miR-126 Regulates Distinct Self-Renewal Outcomes in Normal and Malignant Hematopoietic Stem Cells." <i>Cancer Cell</i> <b>29</b>(2):214–28; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26832662 26832662]; doi: [https://dx.doi.org/10.1016/j.ccell.2015.12.011 10.1016/j.ccell.2015.12.011]; GPMDB: [http://gpmdb.org/data/keyword/26832662 | + | #Lechman ER, Gentner B, Ng SW, Schoof EM, van Galen P, Kennedy JA, Nucera S, Ciceri F, Kaufmann KB, Takayama N, Dobson SM, Trotman-Grant A, Krivdova G, Elzinga J, Mitchell A, Nilsson B, Hermans KG, Eppert K, Marke R, Isserlin R, Voisin V, Bader GD, Zandstra PW, Golub TR, Ebert BL, Lu J, Minden M, Wang JC, Naldini L, Dick JE, (2016) "miR-126 Regulates Distinct Self-Renewal Outcomes in Normal and Malignant Hematopoietic Stem Cells." <i>Cancer Cell</i> <b>29</b>(2):214–28; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26832662 26832662]; doi: [https://dx.doi.org/10.1016/j.ccell.2015.12.011 10.1016/j.ccell.2015.12.011]; GPMDB: [http://gpmdb.org/data/keyword/26832662 72]. |
#Horton ER, Humphries JD, Stutchbury B, Jacquemet G, Ballestrem C, Barry ST, Humphries MJ, (2016) "Modulation of FAK and Src adhesion signaling occurs independently of adhesion complex composition." <i>J Cell Biol</i> <b>212</b>(3):349–64; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26833789 26833789]; doi: [https://dx.doi.org/10.1083/jcb.201508080 10.1083/jcb.201508080]; GPMDB: [http://gpmdb.org/data/keyword/26833789 9]. | #Horton ER, Humphries JD, Stutchbury B, Jacquemet G, Ballestrem C, Barry ST, Humphries MJ, (2016) "Modulation of FAK and Src adhesion signaling occurs independently of adhesion complex composition." <i>J Cell Biol</i> <b>212</b>(3):349–64; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26833789 26833789]; doi: [https://dx.doi.org/10.1083/jcb.201508080 10.1083/jcb.201508080]; GPMDB: [http://gpmdb.org/data/keyword/26833789 9]. | ||
#Zhang P, Kirby D, Dufresne C, Chen Y, Turner R, Ferri S, Edward DP, Van Eyk JE, Semba RD, (2016) "Defining the proteome of human iris, ciliary body, retinal pigment epithelium, and choroid." <i>Proteomics</i> <b>16</b>(7):1146–53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26834087 26834087]; doi: [https://dx.doi.org/10.1002/pmic.201500188 10.1002/pmic.201500188]; GPMDB: [http://gpmdb.org/data/keyword/26834087 120]. | #Zhang P, Kirby D, Dufresne C, Chen Y, Turner R, Ferri S, Edward DP, Van Eyk JE, Semba RD, (2016) "Defining the proteome of human iris, ciliary body, retinal pigment epithelium, and choroid." <i>Proteomics</i> <b>16</b>(7):1146–53; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26834087 26834087]; doi: [https://dx.doi.org/10.1002/pmic.201500188 10.1002/pmic.201500188]; GPMDB: [http://gpmdb.org/data/keyword/26834087 120]. | ||
Line 1,062: | Line 1,064: | ||
#Locard-Paulet M, Lim L, Veluscek G, McMahon K, Sinclair J, van Weverwijk A, Worboys JD, Yuan Y, Isacke CM, Jørgensen C, (2016) "Phosphoproteomic analysis of interacting tumor and endothelial cells identifies regulatory mechanisms of transendothelial migration." <i>Sci Signal</i> <b>9</b>(414):ra15; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26861043 26861043]; doi: [https://dx.doi.org/10.1126/scisignal.aac5820 10.1126/scisignal.aac5820]; GPMDB: [http://gpmdb.org/data/keyword/26861043 76]. | #Locard-Paulet M, Lim L, Veluscek G, McMahon K, Sinclair J, van Weverwijk A, Worboys JD, Yuan Y, Isacke CM, Jørgensen C, (2016) "Phosphoproteomic analysis of interacting tumor and endothelial cells identifies regulatory mechanisms of transendothelial migration." <i>Sci Signal</i> <b>9</b>(414):ra15; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26861043 26861043]; doi: [https://dx.doi.org/10.1126/scisignal.aac5820 10.1126/scisignal.aac5820]; GPMDB: [http://gpmdb.org/data/keyword/26861043 76]. | ||
#Prior KK, Wittig I, Leisegang MS, Groenendyk J, Weissmann N, Michalak M, Jansen-Dürr P, Shah AM, Brandes RP, (2016) "The Endoplasmic Reticulum Chaperone Calnexin Is a NADPH Oxidase NOX4 Interacting Protein." <i>J Biol Chem</i> <b>291</b>(13):7045–59; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26861875 26861875]; doi: [https://dx.doi.org/10.1074/jbc.M115.710772 10.1074/jbc.M115.710772]; GPMDB: [http://gpmdb.org/data/keyword/26861875 80]. | #Prior KK, Wittig I, Leisegang MS, Groenendyk J, Weissmann N, Michalak M, Jansen-Dürr P, Shah AM, Brandes RP, (2016) "The Endoplasmic Reticulum Chaperone Calnexin Is a NADPH Oxidase NOX4 Interacting Protein." <i>J Biol Chem</i> <b>291</b>(13):7045–59; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26861875 26861875]; doi: [https://dx.doi.org/10.1074/jbc.M115.710772 10.1074/jbc.M115.710772]; GPMDB: [http://gpmdb.org/data/keyword/26861875 80]. | ||
+ | #Sahebekhtiari N, Thomsen MM, Sloth JJ, Stenbroen V, Zeviani M, Gregersen N, Viscomi C, Palmfeldt J, (2016) "Quantitative proteomics suggests metabolic reprogramming during ETHE1 deficiency." <i>Proteomics</i> <b>16</b>(7):1166–76; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26867521 26867521]; doi: [https://dx.doi.org/10.1002/pmic.201500336 10.1002/pmic.201500336]; GPMDB: [http://gpmdb.org/data/keyword/26867521 50]. | ||
#Lamberti Y, Cafiero JH, Surmann K, Valdez H, Holubova J, Večerek B, Sebo P, Schmidt F, Völker U, Rodriguez ME, (2016) "Proteome analysis of Bordetella pertussis isolated from human macrophages." <i>J Proteomics</i> <b>136</b>:55–67; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26873878 26873878]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.02.002 10.1016/j.jprot.2016.02.002]; GPMDB: [http://gpmdb.org/data/keyword/26873878 9]. | #Lamberti Y, Cafiero JH, Surmann K, Valdez H, Holubova J, Večerek B, Sebo P, Schmidt F, Völker U, Rodriguez ME, (2016) "Proteome analysis of Bordetella pertussis isolated from human macrophages." <i>J Proteomics</i> <b>136</b>:55–67; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26873878 26873878]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.02.002 10.1016/j.jprot.2016.02.002]; GPMDB: [http://gpmdb.org/data/keyword/26873878 9]. | ||
#Knöppel A, Näsvall J, Andersson DI, (2016) "Compensating the Fitness Costs of Synonymous Mutations." <i>Mol Biol Evol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26882986 26882986]; doi: [https://dx.doi.org/10.1093/molbev/msw028 10.1093/molbev/msw028]; GPMDB: [http://gpmdb.org/data/keyword/26882986 72]. | #Knöppel A, Näsvall J, Andersson DI, (2016) "Compensating the Fitness Costs of Synonymous Mutations." <i>Mol Biol Evol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26882986 26882986]; doi: [https://dx.doi.org/10.1093/molbev/msw028 10.1093/molbev/msw028]; GPMDB: [http://gpmdb.org/data/keyword/26882986 72]. | ||
Line 1,072: | Line 1,075: | ||
#Zilkenat S, Franz-Wachtel M, Stierhof YD, Galan JE, Macek B, Wagner S, (2016) "Determination of the stoichiometry of the complete bacterial type III secretion needle complex using a combined quantitative proteomic approach." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26900162 26900162]; doi: [https://dx.doi.org/10.1074/mcp.M115.056598 10.1074/mcp.M115.056598]; GPMDB: [http://gpmdb.org/data/keyword/26900162 18]. | #Zilkenat S, Franz-Wachtel M, Stierhof YD, Galan JE, Macek B, Wagner S, (2016) "Determination of the stoichiometry of the complete bacterial type III secretion needle complex using a combined quantitative proteomic approach." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26900162 26900162]; doi: [https://dx.doi.org/10.1074/mcp.M115.056598 10.1074/mcp.M115.056598]; GPMDB: [http://gpmdb.org/data/keyword/26900162 18]. | ||
#Zhao L, Chen Y, Bajaj AO, Eblimit A, Xu M, Soens ZT, Wang F, Ge Z, Jung SY, He F, Li Y, Wensel TG, Qin J, Chen R, (2016) "Integrative subcellular proteomic analysis allows accurate prediction of human disease-causing genes." <i>Genome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26912414 26912414]; doi: [https://dx.doi.org/10.1101/gr.198911.115 10.1101/gr.198911.115]; GPMDB: [http://gpmdb.org/data/keyword/26912414 26]. | #Zhao L, Chen Y, Bajaj AO, Eblimit A, Xu M, Soens ZT, Wang F, Ge Z, Jung SY, He F, Li Y, Wensel TG, Qin J, Chen R, (2016) "Integrative subcellular proteomic analysis allows accurate prediction of human disease-causing genes." <i>Genome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26912414 26912414]; doi: [https://dx.doi.org/10.1101/gr.198911.115 10.1101/gr.198911.115]; GPMDB: [http://gpmdb.org/data/keyword/26912414 26]. | ||
+ | #Abelin JG, Patel J, Lu X, Feeney CM, Fagbami L, Creech AL, Hu R, Lam D, Davison D, Pino L, Qiao JW, Kuhn E, Officer A, Li J, Abbatiello S, Subramanian A, Sidman R, Snyder EY, Carr SA, Jaffe JD, (2016) "Reduced-representation phosphosignatures measured by quantitative targeted MS capture cellular states and enable large-scale comparison of drug-induced phenotypes." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26912667 26912667]; doi: [https://dx.doi.org/10.1074/mcp.M116.058354 10.1074/mcp.M116.058354]; GPMDB: [http://gpmdb.org/data/keyword/26912667 3]. | ||
#Chen JX, Cipriani PG, Mecenas D, Polanowska J, Piano F, Gunsalus KC, Selbach M, (2016) "In vivo interaction proteomics in C. elegans embryos provides new insights into P granule dynamics." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26912668 26912668]; doi: [https://dx.doi.org/10.1074/mcp.M115.053975 10.1074/mcp.M115.053975]; GPMDB: [http://gpmdb.org/data/keyword/26912668 66]. | #Chen JX, Cipriani PG, Mecenas D, Polanowska J, Piano F, Gunsalus KC, Selbach M, (2016) "In vivo interaction proteomics in C. elegans embryos provides new insights into P granule dynamics." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26912668 26912668]; doi: [https://dx.doi.org/10.1074/mcp.M115.053975 10.1074/mcp.M115.053975]; GPMDB: [http://gpmdb.org/data/keyword/26912668 66]. | ||
#Mostafa I, Zhu N, Yoo MJ, Balmant KM, Misra BB, Dufresne C, Abou-Hashem M, Chen S, El-Domiaty M, (2016) "New nodes and edges in the glucosinolate molecular network revealed by proteomics and metabolomics of Arabidopsis myb28/29 and cyp79B2/B3 glucosinolate mutants." <i>J Proteomics</i> <b>138</b>:1–19; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26915584 26915584]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.02.012 10.1016/j.jprot.2016.02.012]; GPMDB: [http://gpmdb.org/data/keyword/26915584 24]. | #Mostafa I, Zhu N, Yoo MJ, Balmant KM, Misra BB, Dufresne C, Abou-Hashem M, Chen S, El-Domiaty M, (2016) "New nodes and edges in the glucosinolate molecular network revealed by proteomics and metabolomics of Arabidopsis myb28/29 and cyp79B2/B3 glucosinolate mutants." <i>J Proteomics</i> <b>138</b>:1–19; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26915584 26915584]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.02.012 10.1016/j.jprot.2016.02.012]; GPMDB: [http://gpmdb.org/data/keyword/26915584 24]. | ||
+ | #Xu B, Gao Y, Zhan S, Xiong F, Qiu W, Qian X, Wang T, Wang N, Zhang D, Yang Q, Wang R, Bao X, Dou W, Tian R, Meng S, Gai WP, Huang Y, Yan XX, Ge W, Ma C, (2016) "Quantitative protein profiling of hippocampus during human aging." <i>Neurobiol Aging</i> <b>39</b>:46–56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26923401 26923401]; doi: [https://dx.doi.org/10.1016/j.neurobiolaging.2015.11.029 10.1016/j.neurobiolaging.2015.11.029]; GPMDB: [http://gpmdb.org/data/keyword/26923401 20]. | ||
#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]. | ||
#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>; 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 C. elegans." <i>Mol Cell Proteomics</i>; 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 C. elegans." <i>Mol Cell Proteomics</i>; 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]. | ||
Line 1,081: | Line 1,087: | ||
#Lai ZW, Bolm L, Fuellgraf H, Biniossek ML, Makowiec F, Hopt UT, Werner M, Keck T, Bausch D, Sorio C, Scarpa A, Schilling O, Bronsert P, Wellner UF, (2016) "Characterization of various cell lines from different ampullary cancer subtypes and cancer associated fibroblast-mediated responses." <i>BMC Cancer</i> <b>16</b>(1):195; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26951071 26951071]; doi: [https://dx.doi.org/10.1186/s12885-016-2193-5 10.1186/s12885-016-2193-5]; GPMDB: [http://gpmdb.org/data/keyword/26951071 5]. | #Lai ZW, Bolm L, Fuellgraf H, Biniossek ML, Makowiec F, Hopt UT, Werner M, Keck T, Bausch D, Sorio C, Scarpa A, Schilling O, Bronsert P, Wellner UF, (2016) "Characterization of various cell lines from different ampullary cancer subtypes and cancer associated fibroblast-mediated responses." <i>BMC Cancer</i> <b>16</b>(1):195; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26951071 26951071]; doi: [https://dx.doi.org/10.1186/s12885-016-2193-5 10.1186/s12885-016-2193-5]; GPMDB: [http://gpmdb.org/data/keyword/26951071 5]. | ||
#De Marchi T, Kuhn E, Dekker LJ, Stingl C, Braakman RB, Opdam M, Linn SC, Sweep FC, Span PN, Luider TM, Foekens JA, Martens JW, Carr SA, Umar A, (2016) "Targeted MS Assay Predicting Tamoxifen Resistance in Estrogen-Receptor-Positive Breast Cancer Tissues and Sera." <i>J Proteome Res</i> <b>15</b>(4):1230–42; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26958999 26958999]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b01119 10.1021/acs.jproteome.5b01119]; GPMDB: [http://gpmdb.org/data/keyword/26958999 78]. | #De Marchi T, Kuhn E, Dekker LJ, Stingl C, Braakman RB, Opdam M, Linn SC, Sweep FC, Span PN, Luider TM, Foekens JA, Martens JW, Carr SA, Umar A, (2016) "Targeted MS Assay Predicting Tamoxifen Resistance in Estrogen-Receptor-Positive Breast Cancer Tissues and Sera." <i>J Proteome Res</i> <b>15</b>(4):1230–42; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26958999 26958999]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b01119 10.1021/acs.jproteome.5b01119]; GPMDB: [http://gpmdb.org/data/keyword/26958999 78]. | ||
- | #Jo DH, Bae J, Chae S, Kim JH, Han JH, Hwang D, Lee SW, Kim JH, (2016) "Quantitative proteomics reveals β2 integrin-mediated cytoskeletal rearrangement in VEGF-induced retinal vascular hyperpermeability." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26969716 26969716]; doi: [https://dx.doi.org/10.1074/mcp.M115.053249 10.1074/mcp.M115.053249]; GPMDB: [http://gpmdb.org/data/keyword/26969716 | + | #Jo DH, Bae J, Chae S, Kim JH, Han JH, Hwang D, Lee SW, Kim JH, (2016) "Quantitative proteomics reveals β2 integrin-mediated cytoskeletal rearrangement in VEGF-induced retinal vascular hyperpermeability." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26969716 26969716]; doi: [https://dx.doi.org/10.1074/mcp.M115.053249 10.1074/mcp.M115.053249]; GPMDB: [http://gpmdb.org/data/keyword/26969716 72]. |
+ | #Gallart-Palau X, Lee BS, Adav SS, Qian J, Serra A, Park JE, Lai MK, Chen CP, Kalaria RN, Sze SK, (2016) "Gender differences in white matter pathology and mitochondrial dysfunction in Alzheimer's disease with cerebrovascular disease." <i>Mol Brain</i> <b>9</b>(1):27; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26983404 26983404]; doi: [https://dx.doi.org/10.1186/s13041-016-0205-7 10.1186/s13041-016-0205-7]; GPMDB: [http://gpmdb.org/data/keyword/26983404 10]. | ||
#Bonn F, Pané-Farré J, Schlüter R, Schaffer M, Fuchs S, Bernhardt J, Riedel K, Otto A, Völker U, van Dijl JM, Hecker M, Mäder U, Becher D, (2016) "Global analysis of the impact of linezolid onto virulence factor production in S. aureus USA300." <i>Int J Med Microbiol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26996810 26996810]; doi: [https://dx.doi.org/10.1016/j.ijmm.2016.02.004 10.1016/j.ijmm.2016.02.004]; GPMDB: [http://gpmdb.org/data/keyword/26996810 300]. | #Bonn F, Pané-Farré J, Schlüter R, Schaffer M, Fuchs S, Bernhardt J, Riedel K, Otto A, Völker U, van Dijl JM, Hecker M, Mäder U, Becher D, (2016) "Global analysis of the impact of linezolid onto virulence factor production in S. aureus USA300." <i>Int J Med Microbiol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26996810 26996810]; doi: [https://dx.doi.org/10.1016/j.ijmm.2016.02.004 10.1016/j.ijmm.2016.02.004]; GPMDB: [http://gpmdb.org/data/keyword/26996810 300]. | ||
#He JJ, Ma J, Elsheikha HM, Song HQ, Zhou DH, Zhu XQ, (2016) "Proteomic Profiling of Mouse Liver following Acute Toxoplasma gondii Infection." <i>PLoS One</i> <b>11</b>(3):e0152022; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27003162 27003162]; doi: [https://dx.doi.org/10.1371/journal.pone.0152022 10.1371/journal.pone.0152022]; GPMDB: [http://gpmdb.org/data/keyword/27003162 1]. | #He JJ, Ma J, Elsheikha HM, Song HQ, Zhou DH, Zhu XQ, (2016) "Proteomic Profiling of Mouse Liver following Acute Toxoplasma gondii Infection." <i>PLoS One</i> <b>11</b>(3):e0152022; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27003162 27003162]; doi: [https://dx.doi.org/10.1371/journal.pone.0152022 10.1371/journal.pone.0152022]; GPMDB: [http://gpmdb.org/data/keyword/27003162 1]. | ||
+ | #Liñeiro E, Chiva C, Cantoral JM, Sabido E, Fernández-Acero FJ, (2016) "Phosphoproteome analysis of B. cinerea in response to different plant-based elicitors." <i>J Proteomics</i> <b>139</b>:84–94; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27003611 27003611]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.03.019 10.1016/j.jprot.2016.03.019]; GPMDB: [http://gpmdb.org/data/keyword/27003611 8]. | ||
#Wilkerson EM, Johansson MW, Hebert AS, Westphall MS, Mathur SK, Jarjour NN, Schwantes EA, Mosher DF, Coon JJ, (2016) "The Peripheral Blood Eosinophil Proteome." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27005946 27005946]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00006 10.1021/acs.jproteome.6b00006]; GPMDB: [http://gpmdb.org/data/keyword/27005946 45]. | #Wilkerson EM, Johansson MW, Hebert AS, Westphall MS, Mathur SK, Jarjour NN, Schwantes EA, Mosher DF, Coon JJ, (2016) "The Peripheral Blood Eosinophil Proteome." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27005946 27005946]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00006 10.1021/acs.jproteome.6b00006]; GPMDB: [http://gpmdb.org/data/keyword/27005946 45]. | ||
#Wilson MC, Trakarnsanga K, Heesom KJ, Cogan N, Green C, Toye AM, Parsons SF, Ansteee DJ, Frayne J, (2016) "Comparison of the proteome of adult and cord erythroid cells, and changes in the proteome following reticulocyte maturation." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27006477 27006477]; doi: [https://dx.doi.org/10.1074/mcp.M115.057315 10.1074/mcp.M115.057315]; GPMDB: [http://gpmdb.org/data/keyword/27006477 2]. | #Wilson MC, Trakarnsanga K, Heesom KJ, Cogan N, Green C, Toye AM, Parsons SF, Ansteee DJ, Frayne J, (2016) "Comparison of the proteome of adult and cord erythroid cells, and changes in the proteome following reticulocyte maturation." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27006477 27006477]; doi: [https://dx.doi.org/10.1074/mcp.M115.057315 10.1074/mcp.M115.057315]; GPMDB: [http://gpmdb.org/data/keyword/27006477 2]. | ||
+ | #Sunitha B, Gayathri N, Kumar M, Keshava Prasad TS, Nalini A, Padmanabhan B, Srinivas Bharath MM, (2016) "Muscle biopsies from human muscle diseases with myopathic pathology reveal common alterations in mitochondrial function." <i>J Neurochem</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27015874 27015874]; doi: [https://dx.doi.org/10.1111/jnc.13626 10.1111/jnc.13626]; GPMDB: [http://gpmdb.org/data/keyword/27015874 1]. | ||
+ | #Huang D, Piening BD, Kennedy JJ, Lin C, Jones-Weinert CW, Yan P, Paulovich AG, (2016) "DNA Replication Stress Phosphoproteome Profiles Reveal Novel Functional Phosphorylation Sites on Xrs2 in Saccharomyces cerevisiae." <i>Genetics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27017623 27017623]; doi: [https://dx.doi.org/10.1534/genetics.115.185231 10.1534/genetics.115.185231]; GPMDB: [http://gpmdb.org/data/keyword/27017623 4]. | ||
#Lawrence RT, Searle BC, Llovet A, Villén J, (2016) "Plug-and-play analysis of the human phosphoproteome by targeted high-resolution mass spectrometry." <i>Nat Methods</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27018578 27018578]; doi: [https://dx.doi.org/10.1038/nmeth.3811 10.1038/nmeth.3811]; GPMDB: [http://gpmdb.org/data/keyword/27018578 6]. | #Lawrence RT, Searle BC, Llovet A, Villén J, (2016) "Plug-and-play analysis of the human phosphoproteome by targeted high-resolution mass spectrometry." <i>Nat Methods</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27018578 27018578]; doi: [https://dx.doi.org/10.1038/nmeth.3811 10.1038/nmeth.3811]; GPMDB: [http://gpmdb.org/data/keyword/27018578 6]. | ||
- | #Slany A, Bileck A, Kreutz D, Mayer RL, Muqaku B, Gerner C, (2016) "Contribution of human fibroblasts and endothelial cells to the Hallmarks of Inflammation as determined by proteome profiling." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27025457 27025457]; doi: [https://dx.doi.org/10.1074/mcp.M116.058099 10.1074/mcp.M116.058099]; GPMDB: [http://gpmdb.org/data/keyword/27025457 | + | #Slany A, Bileck A, Kreutz D, Mayer RL, Muqaku B, Gerner C, (2016) "Contribution of human fibroblasts and endothelial cells to the Hallmarks of Inflammation as determined by proteome profiling." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27025457 27025457]; doi: [https://dx.doi.org/10.1074/mcp.M116.058099 10.1074/mcp.M116.058099]; GPMDB: [http://gpmdb.org/data/keyword/27025457 104]. |
+ | #Osinalde N, Sánchez-Quiles V, Blagoev B, Kratchmarova I, (2016) "Changes in Gab2 phosphorylation and interaction partners in response to interleukin (IL)-2 stimulation in T-lymphocytes." <i>Sci Rep</i> <b>6</b>:23530; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27025927 27025927]; doi: [https://dx.doi.org/10.1038/srep23530 10.1038/srep23530]; GPMDB: [http://gpmdb.org/data/keyword/27025927 22]. | ||
+ | #Xu G, Pattamatta A, Hildago R, Pace MC, Brown H, Borchelt DR, (2016) "Vulnerability of newly synthesized proteins to proteostasis stress." <i>J Cell Sci</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27026526 27026526]; doi: [https://dx.doi.org/10.1242/jcs.176479 10.1242/jcs.176479]; GPMDB: [http://gpmdb.org/data/keyword/27026526 55]. | ||
+ | #Goldman-Pinkovich A, Balno C, Strasser R, Zeituni-Molad M, Bendelak K, Rentsch D, Ephros M, Wiese M, Jardim A, Myler PJ, Zilberstein D, (2016) "An Arginine Deprivation Response Pathway Is Induced in Leishmania during Macrophage Invasion." <i>PLoS Pathog</i> <b>12</b>(4):e1005494; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27043018 27043018]; doi: [https://dx.doi.org/10.1371/journal.ppat.1005494 10.1371/journal.ppat.1005494]; GPMDB: [http://gpmdb.org/data/keyword/27043018 8]. | ||
+ | #Salvetti A, Couté Y, Epstein A, Arata L, Kraut A, Navratil V, Bouvet P, Greco A, (2016) "Nuclear functions of nucleolin through global proteomics and interactomic approaches." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27049334 27049334]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00126 10.1021/acs.jproteome.6b00126]; GPMDB: [http://gpmdb.org/data/keyword/27049334 7]. | ||
+ | #Slomnicki L, Malinowska A, Kistowski M, Palusinski A, Zheng JJ, Sepp M, Timmusk T, Dadlez M, Hetman M, (2016) "Nucleolar enrichment of brain proteins with critical roles in human neurodevelopment." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27053602 27053602]; doi: [https://dx.doi.org/10.1074/mcp.M115.051920 10.1074/mcp.M115.051920]; GPMDB: [http://gpmdb.org/data/keyword/27053602 18]. | ||
+ | #Liberton M, Saha R, Jacobs JM, Nguyen AY, Gritsenko MA, Smith RD, Koppenaal DW, Pakrasi HB, (2016) "Global Proteomic Analysis Reveals an Exclusive Role of Thylakoid Membranes in Bioenergetics of a Model Cyanobacterium." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27056914 27056914]; doi: [https://dx.doi.org/10.1074/mcp.M115.057240 10.1074/mcp.M115.057240]; GPMDB: [http://gpmdb.org/data/keyword/27056914 2]. | ||
+ | #Kähne T, Richter S, Kolodziej A, Smalla KH, Pielot R, Engler A, Ohl FW, Dieterich DC, Seidenbecher C, Tischmeyer W, Naumann M, Gundelfinger ED, (2016) "Proteome rearrangements after auditory learning: high-resolution profiling of synapse-enriched protein fractions from mouse brain." <i>J Neurochem</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27062398 27062398]; doi: [https://dx.doi.org/10.1111/jnc.13636 10.1111/jnc.13636]; GPMDB: [http://gpmdb.org/data/keyword/27062398 3]. | ||
+ | #Drabovich AP, Pavlou MP, Schiza C, Diamandis EP, (2016) "Dynamics of protein expression reveals primary targets and secondary messengers of estrogen receptor alpha signaling in MCF-7 breast cancer cells." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27067054 27067054]; doi: [https://dx.doi.org/10.1074/mcp.M115.057257 10.1074/mcp.M115.057257]; GPMDB: [http://gpmdb.org/data/keyword/27067054 11]. | ||
+ | #Sarhan AR, Patel TR, Creese AJ, Tomlinson MG, Hellberg C, Heath JK, Hotchin NA, Cunningham DL, (2016) "Regulation of platelet derived growth factor signalling by LAR protein tyrosine phosphatase: a quantitative phosphoproteomics study." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27074791 27074791]; doi: [https://dx.doi.org/10.1074/mcp.M115.053652 10.1074/mcp.M115.053652]; GPMDB: [http://gpmdb.org/data/keyword/27074791 4]. |
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 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 April 10, 2016.