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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 Jan | + | The following is a list of data sets with associated PubMed IDs that have supplied data to the GPMDB Project through the data sources mentioned above. The list was current, as of Jan 24, 2022. |
#Lipton MS, <i>et al.</i> (2002) "Global analysis of the Deinococcus radiodurans proteome by using accurate mass tags." <i>Proc Natl Acad Sci U S A</i> <b>99</b>(17):11049–54; PMID: [https://pubmed.ncbi.nlm.nih.gov/12177431 12177431]; doi: [https://dx.doi.org/10.1073/pnas.172170199 10.1073/pnas.172170199]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/12177431 498]. | #Lipton MS, <i>et al.</i> (2002) "Global analysis of the Deinococcus radiodurans proteome by using accurate mass tags." <i>Proc Natl Acad Sci U S A</i> <b>99</b>(17):11049–54; PMID: [https://pubmed.ncbi.nlm.nih.gov/12177431 12177431]; doi: [https://dx.doi.org/10.1073/pnas.172170199 10.1073/pnas.172170199]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/12177431 498]. | ||
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#Gfeller D, <i>et al.</i> (2018) "The Length Distribution and Multiple Specificity of Naturally Presented HLA-I Ligands." <i>J Immunol</i> <b>201</b>(12):3705–3716; PMID: [https://pubmed.ncbi.nlm.nih.gov/30429286 30429286]; doi: [https://dx.doi.org/10.4049/jimmunol.1800914 10.4049/jimmunol.1800914]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/30429286 11]. | #Gfeller D, <i>et al.</i> (2018) "The Length Distribution and Multiple Specificity of Naturally Presented HLA-I Ligands." <i>J Immunol</i> <b>201</b>(12):3705–3716; PMID: [https://pubmed.ncbi.nlm.nih.gov/30429286 30429286]; doi: [https://dx.doi.org/10.4049/jimmunol.1800914 10.4049/jimmunol.1800914]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/30429286 11]. | ||
#Bigenzahn JW, <i>et al.</i> (2018) "LZTR1 is a regulator of RAS ubiquitination and signaling." <i>Science</i> <b>362</b>(6419):1171–1177; PMID: [https://pubmed.ncbi.nlm.nih.gov/30442766 30442766]; doi: [https://dx.doi.org/10.1126/science.aap8210 10.1126/science.aap8210]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/30442766 20]. | #Bigenzahn JW, <i>et al.</i> (2018) "LZTR1 is a regulator of RAS ubiquitination and signaling." <i>Science</i> <b>362</b>(6419):1171–1177; PMID: [https://pubmed.ncbi.nlm.nih.gov/30442766 30442766]; doi: [https://dx.doi.org/10.1126/science.aap8210 10.1126/science.aap8210]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/30442766 20]. | ||
+ | #Steindor M, <i>et al.</i> (2019) "A proteomics approach for the identification of species-specific immunogenic proteins in the Mycobacterium abscessus complex." <i>Microbes Infect</i> <b>21</b>(3-4):154–162; PMID: [https://pubmed.ncbi.nlm.nih.gov/30445130 30445130]; doi: [https://dx.doi.org/10.1016/j.micinf.2018.10.006 10.1016/j.micinf.2018.10.006]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/30445130 28]. | ||
#Cominetti O, <i>et al.</i> (2018) "Obesity shows preserved plasma proteome in large independent clinical cohorts." <i>Sci Rep</i> <b>8</b>(1):16981; PMID: [https://pubmed.ncbi.nlm.nih.gov/30451909 30451909]; doi: [https://dx.doi.org/10.1038/s41598-018-35321-7 10.1038/s41598-018-35321-7]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/30451909 318]. | #Cominetti O, <i>et al.</i> (2018) "Obesity shows preserved plasma proteome in large independent clinical cohorts." <i>Sci Rep</i> <b>8</b>(1):16981; PMID: [https://pubmed.ncbi.nlm.nih.gov/30451909 30451909]; doi: [https://dx.doi.org/10.1038/s41598-018-35321-7 10.1038/s41598-018-35321-7]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/30451909 318]. | ||
#Narzt MS, <i>et al.</i> (2019) "A novel role for NUPR1 in the keratinocyte stress response to UV oxidized phospholipids." <i>Redox Biol</i> <b>20</b>:467–482; PMID: [https://pubmed.ncbi.nlm.nih.gov/30466060 30466060]; doi: [https://dx.doi.org/10.1016/j.redox.2018.11.006 10.1016/j.redox.2018.11.006]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/30466060 18]. | #Narzt MS, <i>et al.</i> (2019) "A novel role for NUPR1 in the keratinocyte stress response to UV oxidized phospholipids." <i>Redox Biol</i> <b>20</b>:467–482; PMID: [https://pubmed.ncbi.nlm.nih.gov/30466060 30466060]; doi: [https://dx.doi.org/10.1016/j.redox.2018.11.006 10.1016/j.redox.2018.11.006]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/30466060 18]. | ||
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#Deshmukh AS, <i>et al.</i> (2019) "Proteomics-Based Comparative Mapping of the Secretomes of Human Brown and White Adipocytes Reveals EPDR1 as a Novel Batokine." <i>Cell Metab</i> <b>30</b>(5):963–975.e7; PMID: [https://pubmed.ncbi.nlm.nih.gov/31668873 31668873]; doi: [https://dx.doi.org/10.1016/j.cmet.2019.10.001 10.1016/j.cmet.2019.10.001]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31668873 28]. | #Deshmukh AS, <i>et al.</i> (2019) "Proteomics-Based Comparative Mapping of the Secretomes of Human Brown and White Adipocytes Reveals EPDR1 as a Novel Batokine." <i>Cell Metab</i> <b>30</b>(5):963–975.e7; PMID: [https://pubmed.ncbi.nlm.nih.gov/31668873 31668873]; doi: [https://dx.doi.org/10.1016/j.cmet.2019.10.001 10.1016/j.cmet.2019.10.001]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31668873 28]. | ||
#Alvarez Hayes J, <i>et al.</i> (2020) "Hfq modulates global protein pattern and stress response in Bordetella pertussis." <i>J Proteomics</i> <b>211</b>:103559; PMID: [https://pubmed.ncbi.nlm.nih.gov/31669358 31669358]; doi: [https://dx.doi.org/10.1016/j.jprot.2019.103559 10.1016/j.jprot.2019.103559]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31669358 16]. | #Alvarez Hayes J, <i>et al.</i> (2020) "Hfq modulates global protein pattern and stress response in Bordetella pertussis." <i>J Proteomics</i> <b>211</b>:103559; PMID: [https://pubmed.ncbi.nlm.nih.gov/31669358 31669358]; doi: [https://dx.doi.org/10.1016/j.jprot.2019.103559 10.1016/j.jprot.2019.103559]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31669358 16]. | ||
+ | #Bruschi M, <i>et al.</i> (2019) "Proteomic Analysis of Urinary Extracellular Vesicles Reveals a Role for the Complement System in Medullary Sponge Kidney Disease." <i>Int J Mol Sci</i> <b>20</b>(21):; PMID: [https://pubmed.ncbi.nlm.nih.gov/31694344 31694344]; doi: [https://dx.doi.org/10.3390/ijms20215517 10.3390/ijms20215517]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31694344 90]. | ||
#Walker C, <i>et al.</i> (2020) "Understanding and Eliminating the Detrimental Effect of Thiamine Deficiency on the Oleaginous Yeast Yarrowia lipolytica." <i>Appl Environ Microbiol</i> <b>86</b>(3):; PMID: [https://pubmed.ncbi.nlm.nih.gov/31704686 31704686]; doi: [https://dx.doi.org/10.1128/AEM.02299-19 10.1128/AEM.02299-19]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31704686 16]. | #Walker C, <i>et al.</i> (2020) "Understanding and Eliminating the Detrimental Effect of Thiamine Deficiency on the Oleaginous Yeast Yarrowia lipolytica." <i>Appl Environ Microbiol</i> <b>86</b>(3):; PMID: [https://pubmed.ncbi.nlm.nih.gov/31704686 31704686]; doi: [https://dx.doi.org/10.1128/AEM.02299-19 10.1128/AEM.02299-19]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31704686 16]. | ||
#Sohier P, <i>et al.</i> (2020) "Proteome analysis of formalin-fixed paraffin-embedded colorectal adenomas reveals the heterogeneous nature of traditional serrated adenomas compared to other colorectal adenomas." <i>J Pathol</i> <b>250</b>(3):251–261; PMID: [https://pubmed.ncbi.nlm.nih.gov/31729028 31729028]; doi: [https://dx.doi.org/10.1002/path.5366 10.1002/path.5366]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31729028 61]. | #Sohier P, <i>et al.</i> (2020) "Proteome analysis of formalin-fixed paraffin-embedded colorectal adenomas reveals the heterogeneous nature of traditional serrated adenomas compared to other colorectal adenomas." <i>J Pathol</i> <b>250</b>(3):251–261; PMID: [https://pubmed.ncbi.nlm.nih.gov/31729028 31729028]; doi: [https://dx.doi.org/10.1002/path.5366 10.1002/path.5366]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31729028 61]. | ||
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#Israel S, <i>et al.</i> (2021) "The COP9 signalosome subunit 3 is necessary for early embryo survival by way of a stable protein deposit in mouse oocytes." <i>Mol Hum Reprod</i> <b>27</b>(8):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34264319 34264319]; doi: [https://dx.doi.org/10.1093/molehr/gaab048 10.1093/molehr/gaab048]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34264319 130]. | #Israel S, <i>et al.</i> (2021) "The COP9 signalosome subunit 3 is necessary for early embryo survival by way of a stable protein deposit in mouse oocytes." <i>Mol Hum Reprod</i> <b>27</b>(8):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34264319 34264319]; doi: [https://dx.doi.org/10.1093/molehr/gaab048 10.1093/molehr/gaab048]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34264319 130]. | ||
#Kesavan R, <i>et al.</i> (2021) "The Consequences of Soluble Epoxide Hydrolase Deletion on Tumorigenesis and Metastasis in a Mouse Model of Breast Cancer." <i>Int J Mol Sci</i> <b>22</b>(13):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34281173 34281173]; doi: [https://dx.doi.org/10.3390/ijms22137120 10.3390/ijms22137120]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34281173 13]. | #Kesavan R, <i>et al.</i> (2021) "The Consequences of Soluble Epoxide Hydrolase Deletion on Tumorigenesis and Metastasis in a Mouse Model of Breast Cancer." <i>Int J Mol Sci</i> <b>22</b>(13):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34281173 34281173]; doi: [https://dx.doi.org/10.3390/ijms22137120 10.3390/ijms22137120]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34281173 13]. | ||
+ | #Skowron MA, <i>et al.</i> (2021) "The signal transducer CD24 suppresses the germ cell program and promotes an ectodermal rather than mesodermal cell fate in embryonal carcinomas." <i>Mol Oncol</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/34293822 34293822]; doi: [https://dx.doi.org/10.1002/1878-0261.13066 10.1002/1878-0261.13066]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34293822 8]. | ||
#de Azambuja Rodrigues PM, <i>et al.</i> (2021) "Proteomics reveals disturbances in the immune response and energy metabolism of monocytes from patients with septic shock." <i>Sci Rep</i> <b>11</b>(1):15149; PMID: [https://pubmed.ncbi.nlm.nih.gov/34312428 34312428]; doi: [https://dx.doi.org/10.1038/s41598-021-94474-0 10.1038/s41598-021-94474-0]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34312428 72]. | #de Azambuja Rodrigues PM, <i>et al.</i> (2021) "Proteomics reveals disturbances in the immune response and energy metabolism of monocytes from patients with septic shock." <i>Sci Rep</i> <b>11</b>(1):15149; PMID: [https://pubmed.ncbi.nlm.nih.gov/34312428 34312428]; doi: [https://dx.doi.org/10.1038/s41598-021-94474-0 10.1038/s41598-021-94474-0]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34312428 72]. | ||
#Striednig B, <i>et al.</i> (2021) "Quorum sensing governs a transmissive Legionella subpopulation at the pathogen vacuole periphery." <i>EMBO Rep</i> <b>22</b>(9):e52972; PMID: [https://pubmed.ncbi.nlm.nih.gov/34314090 34314090]; doi: [https://dx.doi.org/10.15252/embr.202152972 10.15252/embr.202152972]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34314090 8]. | #Striednig B, <i>et al.</i> (2021) "Quorum sensing governs a transmissive Legionella subpopulation at the pathogen vacuole periphery." <i>EMBO Rep</i> <b>22</b>(9):e52972; PMID: [https://pubmed.ncbi.nlm.nih.gov/34314090 34314090]; doi: [https://dx.doi.org/10.15252/embr.202152972 10.15252/embr.202152972]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34314090 8]. | ||
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#Champagne J, <i>et al.</i> (2021) "Oncogene-dependent sloppiness in mRNA translation." <i>Mol Cell</i> <b>81</b>(22):4709–4721.e9; PMID: [https://pubmed.ncbi.nlm.nih.gov/34562372 34562372]; doi: [https://dx.doi.org/10.1016/j.molcel.2021.09.002 10.1016/j.molcel.2021.09.002]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34562372 30]. | #Champagne J, <i>et al.</i> (2021) "Oncogene-dependent sloppiness in mRNA translation." <i>Mol Cell</i> <b>81</b>(22):4709–4721.e9; PMID: [https://pubmed.ncbi.nlm.nih.gov/34562372 34562372]; doi: [https://dx.doi.org/10.1016/j.molcel.2021.09.002 10.1016/j.molcel.2021.09.002]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34562372 30]. | ||
#Gao Z, <i>et al.</i> (2021) "A Quantitative Proteomic Approach for the Identification of DNA Guanine Quadruplex-Binding Proteins." <i>J Proteome Res</i> <b>20</b>(11):4919–4924; PMID: [https://pubmed.ncbi.nlm.nih.gov/34570971 34570971]; doi: [https://dx.doi.org/10.1021/acs.jproteome.1c00603 10.1021/acs.jproteome.1c00603]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34570971 30]. | #Gao Z, <i>et al.</i> (2021) "A Quantitative Proteomic Approach for the Identification of DNA Guanine Quadruplex-Binding Proteins." <i>J Proteome Res</i> <b>20</b>(11):4919–4924; PMID: [https://pubmed.ncbi.nlm.nih.gov/34570971 34570971]; doi: [https://dx.doi.org/10.1021/acs.jproteome.1c00603 10.1021/acs.jproteome.1c00603]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34570971 30]. | ||
+ | #Ahmadov U, <i>et al.</i> (2021) "The long non-coding RNA HOTAIRM1 promotes tumor aggressiveness and radiotherapy resistance in glioblastoma." <i>Cell Death Dis</i> <b>12</b>(10):885; PMID: [https://pubmed.ncbi.nlm.nih.gov/34584066 34584066]; doi: [https://dx.doi.org/10.1038/s41419-021-04146-0 10.1038/s41419-021-04146-0]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34584066 15]. | ||
#Gomkale R, <i>et al.</i> (2021) "Mapping protein interactions in the active TOM-TIM23 supercomplex." <i>Nat Commun</i> <b>12</b>(1):5715; PMID: [https://pubmed.ncbi.nlm.nih.gov/34588454 34588454]; doi: [https://dx.doi.org/10.1038/s41467-021-26016-1 10.1038/s41467-021-26016-1]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34588454 87]. | #Gomkale R, <i>et al.</i> (2021) "Mapping protein interactions in the active TOM-TIM23 supercomplex." <i>Nat Commun</i> <b>12</b>(1):5715; PMID: [https://pubmed.ncbi.nlm.nih.gov/34588454 34588454]; doi: [https://dx.doi.org/10.1038/s41467-021-26016-1 10.1038/s41467-021-26016-1]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34588454 87]. | ||
#Kim M, <i>et al.</i> (2021) "A protein interaction landscape of breast cancer." <i>Science</i> <b>374</b>(6563):eabf3066; PMID: [https://pubmed.ncbi.nlm.nih.gov/34591612 34591612]; doi: [https://dx.doi.org/10.1126/science.abf3066 10.1126/science.abf3066]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34591612 702]. | #Kim M, <i>et al.</i> (2021) "A protein interaction landscape of breast cancer." <i>Science</i> <b>374</b>(6563):eabf3066; PMID: [https://pubmed.ncbi.nlm.nih.gov/34591612 34591612]; doi: [https://dx.doi.org/10.1126/science.abf3066 10.1126/science.abf3066]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34591612 702]. | ||
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#Taher L, <i>et al.</i> (2021) "The proteome, not the transcriptome, predicts that oocyte superovulation affects embryonic phenotypes in mice." <i>Sci Rep</i> <b>11</b>(1):23731; PMID: [https://pubmed.ncbi.nlm.nih.gov/34887460 34887460]; doi: [https://dx.doi.org/10.1038/s41598-021-03054-9 10.1038/s41598-021-03054-9]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34887460 28]. | #Taher L, <i>et al.</i> (2021) "The proteome, not the transcriptome, predicts that oocyte superovulation affects embryonic phenotypes in mice." <i>Sci Rep</i> <b>11</b>(1):23731; PMID: [https://pubmed.ncbi.nlm.nih.gov/34887460 34887460]; doi: [https://dx.doi.org/10.1038/s41598-021-03054-9 10.1038/s41598-021-03054-9]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34887460 28]. | ||
#Wang Q, <i>et al.</i> (2021) "Glutamine-fructose-6-phosphate transaminase 2 (GFPT2) is upregulated in breast epithelial-mesenchymal transition and responds to oxidative stress." <i>Mol Cell Proteomics</i> <b></b>:100185; PMID: [https://pubmed.ncbi.nlm.nih.gov/34923141 34923141]; doi: [https://dx.doi.org/10.1016/j.mcpro.2021.100185 10.1016/j.mcpro.2021.100185]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34923141 32]. | #Wang Q, <i>et al.</i> (2021) "Glutamine-fructose-6-phosphate transaminase 2 (GFPT2) is upregulated in breast epithelial-mesenchymal transition and responds to oxidative stress." <i>Mol Cell Proteomics</i> <b></b>:100185; PMID: [https://pubmed.ncbi.nlm.nih.gov/34923141 34923141]; doi: [https://dx.doi.org/10.1016/j.mcpro.2021.100185 10.1016/j.mcpro.2021.100185]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34923141 32]. | ||
+ | #Key J, <i>et al.</i> (2021) "Inactivity of Peptidase ClpP Causes Primary Accumulation of Mitochondrial Disaggregase ClpX with Its Interacting Nucleoid Proteins, and of mtDNA." <i>Cells</i> <b>10</b>(12):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34943861 34943861]; doi: [https://dx.doi.org/10.3390/cells10123354 10.3390/cells10123354]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34943861 4]. | ||
#Almeida N, <i>et al.</i> (2021) "Mapping the Melanoma Plasma Proteome (MPP) Using Single-Shot Proteomics Interfaced with the WiMT Database." <i>Cancers (Basel)</i> <b>13</b>(24):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34944842 34944842]; doi: [https://dx.doi.org/10.3390/cancers13246224 10.3390/cancers13246224]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34944842 24]. | #Almeida N, <i>et al.</i> (2021) "Mapping the Melanoma Plasma Proteome (MPP) Using Single-Shot Proteomics Interfaced with the WiMT Database." <i>Cancers (Basel)</i> <b>13</b>(24):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34944842 34944842]; doi: [https://dx.doi.org/10.3390/cancers13246224 10.3390/cancers13246224]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34944842 24]. | ||
#Kadefors M, <i>et al.</i> (2021) "CD105<sup>+</sup>CD90<sup>+</sup>CD13<sup>+</sup> identifies a clonogenic subset of adventitial lung fibroblasts." <i>Sci Rep</i> <b>11</b>(1):24417; PMID: [https://pubmed.ncbi.nlm.nih.gov/34952905 34952905]; doi: [https://dx.doi.org/10.1038/s41598-021-03963-9 10.1038/s41598-021-03963-9]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34952905 40]. | #Kadefors M, <i>et al.</i> (2021) "CD105<sup>+</sup>CD90<sup>+</sup>CD13<sup>+</sup> identifies a clonogenic subset of adventitial lung fibroblasts." <i>Sci Rep</i> <b>11</b>(1):24417; PMID: [https://pubmed.ncbi.nlm.nih.gov/34952905 34952905]; doi: [https://dx.doi.org/10.1038/s41598-021-03963-9 10.1038/s41598-021-03963-9]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34952905 40]. | ||
#Halkoum R, <i>et al.</i> (2021) "Glyoxal induces senescence in human keratinocytes through oxidative stress and activation of the AKT/FOXO3a/p27<sup>KIP1</sup> pathway." <i>J Invest Dermatol</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/34971698 34971698]; doi: [https://dx.doi.org/10.1016/j.jid.2021.12.022 10.1016/j.jid.2021.12.022]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34971698 4]. | #Halkoum R, <i>et al.</i> (2021) "Glyoxal induces senescence in human keratinocytes through oxidative stress and activation of the AKT/FOXO3a/p27<sup>KIP1</sup> pathway." <i>J Invest Dermatol</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/34971698 34971698]; doi: [https://dx.doi.org/10.1016/j.jid.2021.12.022 10.1016/j.jid.2021.12.022]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34971698 4]. | ||
#Perivolidi VI, <i>et al.</i> (2022) "Proteomic Identification of the SLC25A46 Interactome in Transgenic Mice Expressing SLC25A46-FLAG." <i>J Proteome Res</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/34983179 34983179]; doi: [https://dx.doi.org/10.1021/acs.jproteome.1c00728 10.1021/acs.jproteome.1c00728]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34983179 24]. | #Perivolidi VI, <i>et al.</i> (2022) "Proteomic Identification of the SLC25A46 Interactome in Transgenic Mice Expressing SLC25A46-FLAG." <i>J Proteome Res</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/34983179 34983179]; doi: [https://dx.doi.org/10.1021/acs.jproteome.1c00728 10.1021/acs.jproteome.1c00728]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34983179 24]. | ||
+ | #Smyth SP, <i>et al.</i> (2022) "Elucidation of the protein composition of mouse seminal vesicle fluid." <i>Proteomics</i> <b></b>:e2100227; PMID: [https://pubmed.ncbi.nlm.nih.gov/35014747 35014747]; doi: [https://dx.doi.org/10.1002/pmic.202100227 10.1002/pmic.202100227]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35014747 5]. | ||
+ | #Oom AL, <i>et al.</i> (2022) "Comparative Analysis of T Cell Spatial Proteomics and the Influence of HIV Expression." <i>Mol Cell Proteomics</i> <b></b>:100194; PMID: [https://pubmed.ncbi.nlm.nih.gov/35017099 35017099]; doi: [https://dx.doi.org/10.1016/j.mcpro.2022.100194 10.1016/j.mcpro.2022.100194]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35017099 3]. |
GPMDB was originally constructed to serve as a reference work for all publicly available proteomics generated using tandem mass spectrometry. Public data is downloaded and reanalyzed using the current version of X! Tandem. The result files generated by the reanalysis and the relevant metadata are imported into the database and made available through the associated web site, ftp site and REST interfaces.
Contents |
The following public data repositories are checked daily for new suitable raw data for reanalysis:
Data made available from specific large projects, such as CPTAC or the Human Proteome Atlas, are also included when they are made available. Every effort is made so that reanalyzed results from all data sources are made available within 48 hours of their being released. In addition, data from lab web sites, ftp sites and direct contributions through the GPM sites made available to researchers are imported into GPMDB as part of a daily incremental update process.
GPMDB has been in operation since Jan. 1, 2004. Several large data source repositories have come into existence and ceased activity in the period since that time. All of the data from those repositories (e.g., TRANCHE, Peptidome) were reanalyzed and stored in GPMDB and they are still available even though the source repository sites are no longer active.
Simply because data is made available does not mean that it will be included in GPMDB. The data must be approved our quality control AI for its initial acceptance and it may be rejected subsequently because of either quality or originality concerns.
CAUTION: Many papers contain serious errors in their Methods sections. When using data from the literature, it is important to be skeptical of any experimental parameter (cell line, tissue type, modification reagents, quantitation methoods, etc.) that may impact on your use of the data. We have tried to correct any obvious errors, but there is no way to guarantee that we found them all. When attempting to analyze or reproduce results, keep in mind the likelyhood that even key parts of the experiment methods may have been recorded incorrectly in the associated manuscript, as methods are rarely reviewed properly in the current journal publication process.
The following is a list of data sets with associated PubMed IDs that have supplied data to the GPMDB Project through the data sources mentioned above. The list was current, as of Jan 24, 2022.