Line 27: | Line 27: | ||
==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 | + | 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 Nov 18, 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]. | ||
#Liu T, <i>et al.</i> (2004) "High-throughput comparative proteome analysis using a quantitative cysteinyl-peptide enrichment technology." <i>Anal Chem</i> <b>76</b>(18):5345–53; PMID: [https://pubmed.ncbi.nlm.nih.gov/15362891 15362891]; doi: [https://dx.doi.org/10.1021/ac049485q 10.1021/ac049485q]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/15362891 6]. | #Liu T, <i>et al.</i> (2004) "High-throughput comparative proteome analysis using a quantitative cysteinyl-peptide enrichment technology." <i>Anal Chem</i> <b>76</b>(18):5345–53; PMID: [https://pubmed.ncbi.nlm.nih.gov/15362891 15362891]; doi: [https://dx.doi.org/10.1021/ac049485q 10.1021/ac049485q]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/15362891 6]. | ||
Line 2,258: | Line 2,258: | ||
#Hör J, <i>et al.</i> (2020) "Grad-seq in a Gram-positive bacterium reveals exonucleolytic sRNA activation in competence control." <i>EMBO J</i> <b>39</b>(9):e103852; PMID: [https://pubmed.ncbi.nlm.nih.gov/32227509 32227509]; doi: [https://dx.doi.org/10.15252/embj.2019103852 10.15252/embj.2019103852]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32227509 184]. | #Hör J, <i>et al.</i> (2020) "Grad-seq in a Gram-positive bacterium reveals exonucleolytic sRNA activation in competence control." <i>EMBO J</i> <b>39</b>(9):e103852; PMID: [https://pubmed.ncbi.nlm.nih.gov/32227509 32227509]; doi: [https://dx.doi.org/10.15252/embj.2019103852 10.15252/embj.2019103852]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32227509 184]. | ||
#Reustle A, <i>et al.</i> (2020) "Integrative -omics and HLA-ligandomics analysis to identify novel drug targets for ccRCC immunotherapy." <i>Genome Med</i> <b>12</b>(1):32; PMID: [https://pubmed.ncbi.nlm.nih.gov/32228647 32228647]; doi: [https://dx.doi.org/10.1186/s13073-020-00731-8 10.1186/s13073-020-00731-8]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32228647 1017]. | #Reustle A, <i>et al.</i> (2020) "Integrative -omics and HLA-ligandomics analysis to identify novel drug targets for ccRCC immunotherapy." <i>Genome Med</i> <b>12</b>(1):32; PMID: [https://pubmed.ncbi.nlm.nih.gov/32228647 32228647]; doi: [https://dx.doi.org/10.1186/s13073-020-00731-8 10.1186/s13073-020-00731-8]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32228647 1017]. | ||
+ | #Santana-Codina N, <i>et al.</i> (2020) "Defining and Targeting Adaptations to Oncogenic KRAS<sup>G12C</sup> Inhibition Using Quantitative Temporal Proteomics." <i>Cell Rep</i> <b>30</b>(13):4584–4599.e4; PMID: [https://pubmed.ncbi.nlm.nih.gov/32234489 32234489]; doi: [https://dx.doi.org/10.1016/j.celrep.2020.03.021 10.1016/j.celrep.2020.03.021]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32234489 3]. | ||
#Atlasi Y, <i>et al.</i> (2020) "The translational landscape of ground state pluripotency." <i>Nat Commun</i> <b>11</b>(1):1617; PMID: [https://pubmed.ncbi.nlm.nih.gov/32238817 32238817]; doi: [https://dx.doi.org/10.1038/s41467-020-15449-9 10.1038/s41467-020-15449-9]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32238817 48]. | #Atlasi Y, <i>et al.</i> (2020) "The translational landscape of ground state pluripotency." <i>Nat Commun</i> <b>11</b>(1):1617; PMID: [https://pubmed.ncbi.nlm.nih.gov/32238817 32238817]; doi: [https://dx.doi.org/10.1038/s41467-020-15449-9 10.1038/s41467-020-15449-9]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32238817 48]. | ||
#Huang C, <i>et al.</i> (2020) "Phosphoproteomic characterization of the signaling network resulting from activation of the chemokine receptor CCR2." <i>J Biol Chem</i> <b>295</b>(19):6518–6531; PMID: [https://pubmed.ncbi.nlm.nih.gov/32241914 32241914]; doi: [https://dx.doi.org/10.1074/jbc.RA119.012026 10.1074/jbc.RA119.012026]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32241914 72]. | #Huang C, <i>et al.</i> (2020) "Phosphoproteomic characterization of the signaling network resulting from activation of the chemokine receptor CCR2." <i>J Biol Chem</i> <b>295</b>(19):6518–6531; PMID: [https://pubmed.ncbi.nlm.nih.gov/32241914 32241914]; doi: [https://dx.doi.org/10.1074/jbc.RA119.012026 10.1074/jbc.RA119.012026]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32241914 72]. | ||
Line 2,329: | Line 2,330: | ||
#Osthues T, <i>et al.</i> (2020) "The Lipid Receptor G2A (GPR132) Mediates Macrophage Migration in Nerve Injury-Induced Neuropathic Pain." <i>Cells</i> <b>9</b>(7):; PMID: [https://pubmed.ncbi.nlm.nih.gov/32708184 32708184]; doi: [https://dx.doi.org/10.3390/cells9071740 10.3390/cells9071740]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32708184 1]. | #Osthues T, <i>et al.</i> (2020) "The Lipid Receptor G2A (GPR132) Mediates Macrophage Migration in Nerve Injury-Induced Neuropathic Pain." <i>Cells</i> <b>9</b>(7):; PMID: [https://pubmed.ncbi.nlm.nih.gov/32708184 32708184]; doi: [https://dx.doi.org/10.3390/cells9071740 10.3390/cells9071740]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32708184 1]. | ||
#Pathak KV, <i>et al.</i> (2020) "Molecular Profiling of Innate Immune Response Mechanisms in Ventilator-associated Pneumonia." <i>Mol Cell Proteomics</i> <b>19</b>(10):1688–1705; PMID: [https://pubmed.ncbi.nlm.nih.gov/32709677 32709677]; doi: [https://dx.doi.org/10.1074/mcp.RA120.002207 10.1074/mcp.RA120.002207]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32709677 85]. | #Pathak KV, <i>et al.</i> (2020) "Molecular Profiling of Innate Immune Response Mechanisms in Ventilator-associated Pneumonia." <i>Mol Cell Proteomics</i> <b>19</b>(10):1688–1705; PMID: [https://pubmed.ncbi.nlm.nih.gov/32709677 32709677]; doi: [https://dx.doi.org/10.1074/mcp.RA120.002207 10.1074/mcp.RA120.002207]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32709677 85]. | ||
+ | #Hasan MM, <i>et al.</i> (2020) "Coactosin Phosphorylation Controls Entamoeba histolytica Cell Membrane Protrusions and Cell Motility." <i>mBio</i> <b>11</b>(4):; PMID: [https://pubmed.ncbi.nlm.nih.gov/32753489 32753489]; doi: [https://dx.doi.org/10.1128/mBio.00660-20 10.1128/mBio.00660-20]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32753489 65]. | ||
#Cheng YC, <i>et al.</i> (2020) "Anchorage independence altered vasculogenic phenotype of melanoma cells through downregulation in aminopeptidase N /syndecan-1/integrin β4 axis." <i>Aging (Albany NY)</i> <b>12</b>(17):16803–16819; PMID: [https://pubmed.ncbi.nlm.nih.gov/32756007 32756007]; doi: [https://dx.doi.org/10.18632/aging.103425 10.18632/aging.103425]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32756007 80]. | #Cheng YC, <i>et al.</i> (2020) "Anchorage independence altered vasculogenic phenotype of melanoma cells through downregulation in aminopeptidase N /syndecan-1/integrin β4 axis." <i>Aging (Albany NY)</i> <b>12</b>(17):16803–16819; PMID: [https://pubmed.ncbi.nlm.nih.gov/32756007 32756007]; doi: [https://dx.doi.org/10.18632/aging.103425 10.18632/aging.103425]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32756007 80]. | ||
#Perino M, <i>et al.</i> (2020) "Two Functional Axes of Feedback-Enforced PRC2 Recruitment in Mouse Embryonic Stem Cells." <i>Stem Cell Reports</i> <b>15</b>(6):1287–1300; PMID: [https://pubmed.ncbi.nlm.nih.gov/32763159 32763159]; doi: [https://dx.doi.org/10.1016/j.stemcr.2020.07.007 10.1016/j.stemcr.2020.07.007]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32763159 11]. | #Perino M, <i>et al.</i> (2020) "Two Functional Axes of Feedback-Enforced PRC2 Recruitment in Mouse Embryonic Stem Cells." <i>Stem Cell Reports</i> <b>15</b>(6):1287–1300; PMID: [https://pubmed.ncbi.nlm.nih.gov/32763159 32763159]; doi: [https://dx.doi.org/10.1016/j.stemcr.2020.07.007 10.1016/j.stemcr.2020.07.007]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/32763159 11]. | ||
Line 2,444: | Line 2,446: | ||
#Demmers LC, <i>et al.</i> (2021) "HLA Class II Presentation Is Specifically Altered at Elevated Temperatures in the B-Lymphoblastic Cell Line JY." <i>Mol Cell Proteomics</i> <b>20</b>:100089; PMID: [https://pubmed.ncbi.nlm.nih.gov/33933681 33933681]; doi: [https://dx.doi.org/10.1016/j.mcpro.2021.100089 10.1016/j.mcpro.2021.100089]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/33933681 36]. | #Demmers LC, <i>et al.</i> (2021) "HLA Class II Presentation Is Specifically Altered at Elevated Temperatures in the B-Lymphoblastic Cell Line JY." <i>Mol Cell Proteomics</i> <b>20</b>:100089; PMID: [https://pubmed.ncbi.nlm.nih.gov/33933681 33933681]; doi: [https://dx.doi.org/10.1016/j.mcpro.2021.100089 10.1016/j.mcpro.2021.100089]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/33933681 36]. | ||
#Maheshwari G, <i>et al.</i> (2021) "Tandem mass tag-based proteomics for studying the effects of a biotechnologically produced oyster mushroom against hepatic steatosis in obese Zucker rats." <i>J Proteomics</i> <b>242</b>:104255; PMID: [https://pubmed.ncbi.nlm.nih.gov/33957313 33957313]; doi: [https://dx.doi.org/10.1016/j.jprot.2021.104255 10.1016/j.jprot.2021.104255]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/33957313 1]. | #Maheshwari G, <i>et al.</i> (2021) "Tandem mass tag-based proteomics for studying the effects of a biotechnologically produced oyster mushroom against hepatic steatosis in obese Zucker rats." <i>J Proteomics</i> <b>242</b>:104255; PMID: [https://pubmed.ncbi.nlm.nih.gov/33957313 33957313]; doi: [https://dx.doi.org/10.1016/j.jprot.2021.104255 10.1016/j.jprot.2021.104255]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/33957313 1]. | ||
+ | #Wright BW, <i>et al.</i> (2021) "Proteomic and Transcriptomic Analysis of <i>Microviridae</i> φX174 Infection Reveals Broad Upregulation of Host Escherichia coli Membrane Damage and Heat Shock Responses." <i>mSystems</i> <b>6</b>(3):; PMID: [https://pubmed.ncbi.nlm.nih.gov/33975962 33975962]; doi: [https://dx.doi.org/10.1128/mSystems.00046-21 10.1128/mSystems.00046-21]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/33975962 24]. | ||
#Englert H, <i>et al.</i> (2021) "Defective NET clearance contributes to sustained FXII activation in COVID-19-associated pulmonary thrombo-inflammation." <i>EBioMedicine</i> <b>67</b>:103382; PMID: [https://pubmed.ncbi.nlm.nih.gov/34000623 34000623]; doi: [https://dx.doi.org/10.1016/j.ebiom.2021.103382 10.1016/j.ebiom.2021.103382]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34000623 36]. | #Englert H, <i>et al.</i> (2021) "Defective NET clearance contributes to sustained FXII activation in COVID-19-associated pulmonary thrombo-inflammation." <i>EBioMedicine</i> <b>67</b>:103382; PMID: [https://pubmed.ncbi.nlm.nih.gov/34000623 34000623]; doi: [https://dx.doi.org/10.1016/j.ebiom.2021.103382 10.1016/j.ebiom.2021.103382]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34000623 36]. | ||
#Parker R, <i>et al.</i> (2021) "Mapping the SARS-CoV-2 spike glycoprotein-derived peptidome presented by HLA class II on dendritic cells." <i>Cell Rep</i> <b>35</b>(8):109179; PMID: [https://pubmed.ncbi.nlm.nih.gov/34004174 34004174]; doi: [https://dx.doi.org/10.1016/j.celrep.2021.109179 10.1016/j.celrep.2021.109179]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34004174 30]. | #Parker R, <i>et al.</i> (2021) "Mapping the SARS-CoV-2 spike glycoprotein-derived peptidome presented by HLA class II on dendritic cells." <i>Cell Rep</i> <b>35</b>(8):109179; PMID: [https://pubmed.ncbi.nlm.nih.gov/34004174 34004174]; doi: [https://dx.doi.org/10.1016/j.celrep.2021.109179 10.1016/j.celrep.2021.109179]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34004174 30]. | ||
Line 2,451: | Line 2,454: | ||
#Chen H, <i>et al.</i> (2021) "Proteomics analysis reveals the effect of 1α,25(OH)<sub>2</sub>VD<sub>3</sub>-glycosides on development of early testes in piglets." <i>Sci Rep</i> <b>11</b>(1):11341; PMID: [https://pubmed.ncbi.nlm.nih.gov/34059707 34059707]; doi: [https://dx.doi.org/10.1038/s41598-021-90676-8 10.1038/s41598-021-90676-8]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34059707 3]. | #Chen H, <i>et al.</i> (2021) "Proteomics analysis reveals the effect of 1α,25(OH)<sub>2</sub>VD<sub>3</sub>-glycosides on development of early testes in piglets." <i>Sci Rep</i> <b>11</b>(1):11341; PMID: [https://pubmed.ncbi.nlm.nih.gov/34059707 34059707]; doi: [https://dx.doi.org/10.1038/s41598-021-90676-8 10.1038/s41598-021-90676-8]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34059707 3]. | ||
#Shaba E, <i>et al.</i> (2021) "Proteome Characterization of BALF Extracellular Vesicles in Idiopathic Pulmonary Fibrosis: Unveiling Undercover Molecular Pathways." <i>Int J Mol Sci</i> <b>22</b>(11):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34071777 34071777]; doi: [https://dx.doi.org/10.3390/ijms22115696 10.3390/ijms22115696]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34071777 4]. | #Shaba E, <i>et al.</i> (2021) "Proteome Characterization of BALF Extracellular Vesicles in Idiopathic Pulmonary Fibrosis: Unveiling Undercover Molecular Pathways." <i>Int J Mol Sci</i> <b>22</b>(11):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34071777 34071777]; doi: [https://dx.doi.org/10.3390/ijms22115696 10.3390/ijms22115696]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34071777 4]. | ||
- | #Hatje FA, <i>et al.</i> (2021) "Tripartite Separation of Glomerular Cell Types and Proteomes from Reporter-Free Mice." <i>J Am Soc Nephrol</i> <b>32</b>(9):2175–2193; PMID: [https://pubmed.ncbi.nlm.nih.gov/34074698 34074698]; doi: [https://dx.doi.org/10.1681/ASN.2020091346 10.1681/ASN.2020091346]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34074698 | + | #Hatje FA, <i>et al.</i> (2021) "Tripartite Separation of Glomerular Cell Types and Proteomes from Reporter-Free Mice." <i>J Am Soc Nephrol</i> <b>32</b>(9):2175–2193; PMID: [https://pubmed.ncbi.nlm.nih.gov/34074698 34074698]; doi: [https://dx.doi.org/10.1681/ASN.2020091346 10.1681/ASN.2020091346]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34074698 87]. |
#Wu CT, <i>et al.</i> (2021) "SARS-CoV-2 infects human pancreatic β cells and elicits β cell impairment." <i>Cell Metab</i> <b>33</b>(8):1565–1576.e5; PMID: [https://pubmed.ncbi.nlm.nih.gov/34081912 34081912]; doi: [https://dx.doi.org/10.1016/j.cmet.2021.05.013 10.1016/j.cmet.2021.05.013]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34081912 40]. | #Wu CT, <i>et al.</i> (2021) "SARS-CoV-2 infects human pancreatic β cells and elicits β cell impairment." <i>Cell Metab</i> <b>33</b>(8):1565–1576.e5; PMID: [https://pubmed.ncbi.nlm.nih.gov/34081912 34081912]; doi: [https://dx.doi.org/10.1016/j.cmet.2021.05.013 10.1016/j.cmet.2021.05.013]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34081912 40]. | ||
#Hu S, <i>et al.</i> (2021) "Integrated metabolomics and proteomics analysis reveals energy metabolism disorders in the livers of sleep-deprived mice." <i>J Proteomics</i> <b>245</b>:104290; PMID: [https://pubmed.ncbi.nlm.nih.gov/34089895 34089895]; doi: [https://dx.doi.org/10.1016/j.jprot.2021.104290 10.1016/j.jprot.2021.104290]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34089895 1]. | #Hu S, <i>et al.</i> (2021) "Integrated metabolomics and proteomics analysis reveals energy metabolism disorders in the livers of sleep-deprived mice." <i>J Proteomics</i> <b>245</b>:104290; PMID: [https://pubmed.ncbi.nlm.nih.gov/34089895 34089895]; doi: [https://dx.doi.org/10.1016/j.jprot.2021.104290 10.1016/j.jprot.2021.104290]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34089895 1]. | ||
Line 2,486: | Line 2,489: | ||
#Vanderboom PM, <i>et al.</i> (2021) "A size-exclusion-based approach for purifying extracellular vesicles from human plasma." <i>Cell Rep Methods</i> <b>1</b>(3):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34355211 34355211]; doi: [https://dx.doi.org/10.1016/j.crmeth.2021.100055 10.1016/j.crmeth.2021.100055]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34355211 140]. | #Vanderboom PM, <i>et al.</i> (2021) "A size-exclusion-based approach for purifying extracellular vesicles from human plasma." <i>Cell Rep Methods</i> <b>1</b>(3):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34355211 34355211]; doi: [https://dx.doi.org/10.1016/j.crmeth.2021.100055 10.1016/j.crmeth.2021.100055]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34355211 140]. | ||
#Jang HN, <i>et al.</i> (2021) "Mass Spectrometry-Based Proteomic Discovery of Prognostic Biomarkers in Adrenal Cortical Carcinoma." <i>Cancers (Basel)</i> <b>13</b>(15):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34359790 34359790]; doi: [https://dx.doi.org/10.3390/cancers13153890 10.3390/cancers13153890]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34359790 174]. | #Jang HN, <i>et al.</i> (2021) "Mass Spectrometry-Based Proteomic Discovery of Prognostic Biomarkers in Adrenal Cortical Carcinoma." <i>Cancers (Basel)</i> <b>13</b>(15):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34359790 34359790]; doi: [https://dx.doi.org/10.3390/cancers13153890 10.3390/cancers13153890]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34359790 174]. | ||
+ | #Lopez BGC, <i>et al.</i> (2022) "Multimodal platform for assessing drug distribution and response in clinical trials." <i>Neuro Oncol</i> <b>24</b>(1):64–77; PMID: [https://pubmed.ncbi.nlm.nih.gov/34383057 34383057]; doi: [https://dx.doi.org/10.1093/neuonc/noab197 10.1093/neuonc/noab197]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34383057 20]. | ||
#Wang HZ, <i>et al.</i> (2021) "Cerebrospinal fluid proteomics reveal potential protein targets of JiaWeiSiNiSan in preventing chronic psychological stress damage." <i>Pharm Biol</i> <b>59</b>(1):1065–1076; PMID: [https://pubmed.ncbi.nlm.nih.gov/34383630 34383630]; doi: [https://dx.doi.org/10.1080/13880209.2021.1954666 10.1080/13880209.2021.1954666]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34383630 3]. | #Wang HZ, <i>et al.</i> (2021) "Cerebrospinal fluid proteomics reveal potential protein targets of JiaWeiSiNiSan in preventing chronic psychological stress damage." <i>Pharm Biol</i> <b>59</b>(1):1065–1076; PMID: [https://pubmed.ncbi.nlm.nih.gov/34383630 34383630]; doi: [https://dx.doi.org/10.1080/13880209.2021.1954666 10.1080/13880209.2021.1954666]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34383630 3]. | ||
#Qi YA, <i>et al.</i> (2021) "Proteogenomic Analysis Unveils the HLA Class I-Presented Immunopeptidome in Melanoma and EGFR-Mutant Lung Adenocarcinoma." <i>Mol Cell Proteomics</i> <b>20</b>:100136; PMID: [https://pubmed.ncbi.nlm.nih.gov/34391887 34391887]; doi: [https://dx.doi.org/10.1016/j.mcpro.2021.100136 10.1016/j.mcpro.2021.100136]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34391887 27]. | #Qi YA, <i>et al.</i> (2021) "Proteogenomic Analysis Unveils the HLA Class I-Presented Immunopeptidome in Melanoma and EGFR-Mutant Lung Adenocarcinoma." <i>Mol Cell Proteomics</i> <b>20</b>:100136; PMID: [https://pubmed.ncbi.nlm.nih.gov/34391887 34391887]; doi: [https://dx.doi.org/10.1016/j.mcpro.2021.100136 10.1016/j.mcpro.2021.100136]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34391887 27]. | ||
Line 2,529: | Line 2,533: | ||
#Froehlich JW, <i>et al.</i> (2021) "The Urinary Proteomic Profile Implicates Key Regulators for Urologic Chronic Pelvic Pain Syndrome (UCPPS): A MAPP Research Network Study." <i>Mol Cell Proteomics</i> <b>21</b>(1):100176; PMID: [https://pubmed.ncbi.nlm.nih.gov/34774759 34774759]; doi: [https://dx.doi.org/10.1016/j.mcpro.2021.100176 10.1016/j.mcpro.2021.100176]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34774759 52]. | #Froehlich JW, <i>et al.</i> (2021) "The Urinary Proteomic Profile Implicates Key Regulators for Urologic Chronic Pelvic Pain Syndrome (UCPPS): A MAPP Research Network Study." <i>Mol Cell Proteomics</i> <b>21</b>(1):100176; PMID: [https://pubmed.ncbi.nlm.nih.gov/34774759 34774759]; doi: [https://dx.doi.org/10.1016/j.mcpro.2021.100176 10.1016/j.mcpro.2021.100176]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34774759 52]. | ||
#Simancas Escorcia V, <i>et al.</i> (2021) "Pathogenesis of Enamel-Renal Syndrome Associated Gingival Fibromatosis: A Proteomic Approach." <i>Front Endocrinol (Lausanne)</i> <b>12</b>:752568; PMID: [https://pubmed.ncbi.nlm.nih.gov/34777248 34777248]; doi: [https://dx.doi.org/10.3389/fendo.2021.752568 10.3389/fendo.2021.752568]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34777248 14]. | #Simancas Escorcia V, <i>et al.</i> (2021) "Pathogenesis of Enamel-Renal Syndrome Associated Gingival Fibromatosis: A Proteomic Approach." <i>Front Endocrinol (Lausanne)</i> <b>12</b>:752568; PMID: [https://pubmed.ncbi.nlm.nih.gov/34777248 34777248]; doi: [https://dx.doi.org/10.3389/fendo.2021.752568 10.3389/fendo.2021.752568]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34777248 14]. | ||
+ | #Verner Z, <i>et al.</i> (2021) "Anaerobic peroxisomes in Entamoeba histolytica metabolize myo-inositol." <i>PLoS Pathog</i> <b>17</b>(11):e1010041; PMID: [https://pubmed.ncbi.nlm.nih.gov/34780573 34780573]; doi: [https://dx.doi.org/10.1371/journal.ppat.1010041 10.1371/journal.ppat.1010041]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34780573 29]. | ||
#Capizzi M, <i>et al.</i> (2021) "Developmental defects in Huntington's disease show that axonal growth and microtubule reorganization require NUMA1." <i>Neuron</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/34793694 34793694]; doi: [https://dx.doi.org/10.1016/j.neuron.2021.10.033 10.1016/j.neuron.2021.10.033]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34793694 10]. | #Capizzi M, <i>et al.</i> (2021) "Developmental defects in Huntington's disease show that axonal growth and microtubule reorganization require NUMA1." <i>Neuron</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/34793694 34793694]; doi: [https://dx.doi.org/10.1016/j.neuron.2021.10.033 10.1016/j.neuron.2021.10.033]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34793694 10]. | ||
#Stirm M, <i>et al.</i> (2021) "A scalable, clinically severe pig model for Duchenne muscular dystrophy." <i>Dis Model Mech</i> <b>14</b>(12):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34796900 34796900]; doi: [https://dx.doi.org/10.1242/dmm.049285 10.1242/dmm.049285]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34796900 42]. | #Stirm M, <i>et al.</i> (2021) "A scalable, clinically severe pig model for Duchenne muscular dystrophy." <i>Dis Model Mech</i> <b>14</b>(12):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34796900 34796900]; doi: [https://dx.doi.org/10.1242/dmm.049285 10.1242/dmm.049285]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34796900 42]. | ||
Line 2,534: | Line 2,539: | ||
#de Sousa BM, <i>et al.</i> (2021) "Capacitive interdigitated system of high osteoinductive/conductive performance for personalized acting-sensing implants." <i>NPJ Regen Med</i> <b>6</b>(1):80; PMID: [https://pubmed.ncbi.nlm.nih.gov/34815414 34815414]; doi: [https://dx.doi.org/10.1038/s41536-021-00184-6 10.1038/s41536-021-00184-6]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34815414 8]. | #de Sousa BM, <i>et al.</i> (2021) "Capacitive interdigitated system of high osteoinductive/conductive performance for personalized acting-sensing implants." <i>NPJ Regen Med</i> <b>6</b>(1):80; PMID: [https://pubmed.ncbi.nlm.nih.gov/34815414 34815414]; doi: [https://dx.doi.org/10.1038/s41536-021-00184-6 10.1038/s41536-021-00184-6]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34815414 8]. | ||
#Ding Y, <i>et al.</i> (2021) "MicroRNA-222 Transferred From Semen Extracellular Vesicles Inhibits Sperm Apoptosis by Targeting <i>BCL2L11</i>." <i>Front Cell Dev Biol</i> <b>9</b>:736864; PMID: [https://pubmed.ncbi.nlm.nih.gov/34820370 34820370]; doi: [https://dx.doi.org/10.3389/fcell.2021.736864 10.3389/fcell.2021.736864]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34820370 8]. | #Ding Y, <i>et al.</i> (2021) "MicroRNA-222 Transferred From Semen Extracellular Vesicles Inhibits Sperm Apoptosis by Targeting <i>BCL2L11</i>." <i>Front Cell Dev Biol</i> <b>9</b>:736864; PMID: [https://pubmed.ncbi.nlm.nih.gov/34820370 34820370]; doi: [https://dx.doi.org/10.3389/fcell.2021.736864 10.3389/fcell.2021.736864]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34820370 8]. | ||
+ | #Li DK, <i>et al.</i> (2022) "Multi-omics of a pre-clinical model of diabetic cardiomyopathy reveals increased fatty acid supply impacts mitochondrial metabolic selectivity." <i>J Mol Cell Cardiol</i> <b>164</b>:92–109; PMID: [https://pubmed.ncbi.nlm.nih.gov/34826416 34826416]; doi: [https://dx.doi.org/10.1016/j.yjmcc.2021.11.009 10.1016/j.yjmcc.2021.11.009]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34826416 8]. | ||
#Rolfs Z, <i>et al.</i> (2021) "An atlas of protein turnover rates in mouse tissues." <i>Nat Commun</i> <b>12</b>(1):6778; PMID: [https://pubmed.ncbi.nlm.nih.gov/34836951 34836951]; doi: [https://dx.doi.org/10.1038/s41467-021-26842-3 10.1038/s41467-021-26842-3]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34836951 173]. | #Rolfs Z, <i>et al.</i> (2021) "An atlas of protein turnover rates in mouse tissues." <i>Nat Commun</i> <b>12</b>(1):6778; PMID: [https://pubmed.ncbi.nlm.nih.gov/34836951 34836951]; doi: [https://dx.doi.org/10.1038/s41467-021-26842-3 10.1038/s41467-021-26842-3]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34836951 173]. | ||
#Needham EJ, <i>et al.</i> (2021) "Personalized phosphoproteomics identifies functional signaling." <i>Nat Biotechnol</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/34857927 34857927]; doi: [https://dx.doi.org/10.1038/s41587-021-01099-9 10.1038/s41587-021-01099-9]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34857927 26]. | #Needham EJ, <i>et al.</i> (2021) "Personalized phosphoproteomics identifies functional signaling." <i>Nat Biotechnol</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/34857927 34857927]; doi: [https://dx.doi.org/10.1038/s41587-021-01099-9 10.1038/s41587-021-01099-9]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34857927 26]. | ||
Line 2,541: | Line 2,547: | ||
#Arico DS, <i>et al.</i> (2021) "A novel strategy to uncover specific GO terms/phosphorylation pathways in phosphoproteomic data in Arabidopsis thaliana." <i>BMC Plant Biol</i> <b>21</b>(1):592; PMID: [https://pubmed.ncbi.nlm.nih.gov/34906086 34906086]; doi: [https://dx.doi.org/10.1186/s12870-021-03377-9 10.1186/s12870-021-03377-9]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34906086 9]. | #Arico DS, <i>et al.</i> (2021) "A novel strategy to uncover specific GO terms/phosphorylation pathways in phosphoproteomic data in Arabidopsis thaliana." <i>BMC Plant Biol</i> <b>21</b>(1):592; PMID: [https://pubmed.ncbi.nlm.nih.gov/34906086 34906086]; doi: [https://dx.doi.org/10.1186/s12870-021-03377-9 10.1186/s12870-021-03377-9]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34906086 9]. | ||
#Chen L, <i>et al.</i> (2021) "Combined Transcriptome and Proteome Profiling for Role of pfEMP1 in Antimalarial Mechanism of Action of Dihydroartemisinin." <i>Microbiol Spectr</i> <b>9</b>(3):e0127821; PMID: [https://pubmed.ncbi.nlm.nih.gov/34908430 34908430]; doi: [https://dx.doi.org/10.1128/Spectrum.01278-21 10.1128/Spectrum.01278-21]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34908430 1]. | #Chen L, <i>et al.</i> (2021) "Combined Transcriptome and Proteome Profiling for Role of pfEMP1 in Antimalarial Mechanism of Action of Dihydroartemisinin." <i>Microbiol Spectr</i> <b>9</b>(3):e0127821; PMID: [https://pubmed.ncbi.nlm.nih.gov/34908430 34908430]; doi: [https://dx.doi.org/10.1128/Spectrum.01278-21 10.1128/Spectrum.01278-21]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34908430 1]. | ||
+ | #Erdmann É, <i>et al.</i> (2022) "Androgen receptor-mediated transcriptional repression targets cell plasticity in prostate cancer." <i>Mol Oncol</i> <b>16</b>(13):2518–2536; PMID: [https://pubmed.ncbi.nlm.nih.gov/34919781 34919781]; doi: [https://dx.doi.org/10.1002/1878-0261.13164 10.1002/1878-0261.13164]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34919781 52]. | ||
#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]. | ||
#Koehler S, <i>et al.</i> (2022) "Scaffold polarity proteins Par3A and Par3B share redundant functions while Par3B acts independent of atypical protein kinase C/Par6 in podocytes to maintain the kidney filtration barrier." <i>Kidney Int</i> <b>101</b>(4):733–751; PMID: [https://pubmed.ncbi.nlm.nih.gov/34929254 34929254]; doi: [https://dx.doi.org/10.1016/j.kint.2021.11.030 10.1016/j.kint.2021.11.030]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34929254 41]. | #Koehler S, <i>et al.</i> (2022) "Scaffold polarity proteins Par3A and Par3B share redundant functions while Par3B acts independent of atypical protein kinase C/Par6 in podocytes to maintain the kidney filtration barrier." <i>Kidney Int</i> <b>101</b>(4):733–751; PMID: [https://pubmed.ncbi.nlm.nih.gov/34929254 34929254]; doi: [https://dx.doi.org/10.1016/j.kint.2021.11.030 10.1016/j.kint.2021.11.030]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34929254 41]. | ||
Line 2,602: | Line 2,609: | ||
#Rademaker G, <i>et al.</i> (2022) "Paladin, overexpressed in colon cancer, is required for actin polymerisation and liver metastasis dissemination." <i>Oncogenesis</i> <b>11</b>(1):42; PMID: [https://pubmed.ncbi.nlm.nih.gov/35882839 35882839]; doi: [https://dx.doi.org/10.1038/s41389-022-00416-4 10.1038/s41389-022-00416-4]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35882839 18]. | #Rademaker G, <i>et al.</i> (2022) "Paladin, overexpressed in colon cancer, is required for actin polymerisation and liver metastasis dissemination." <i>Oncogenesis</i> <b>11</b>(1):42; PMID: [https://pubmed.ncbi.nlm.nih.gov/35882839 35882839]; doi: [https://dx.doi.org/10.1038/s41389-022-00416-4 10.1038/s41389-022-00416-4]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35882839 18]. | ||
#Vadnjal N, <i>et al.</i> (2022) "Proteomic analysis of the actin cortex in interphase and mitosis." <i>J Cell Sci</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/35892282 35892282]; doi: [https://dx.doi.org/10.1242/jcs.259993 10.1242/jcs.259993]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35892282 36]. | #Vadnjal N, <i>et al.</i> (2022) "Proteomic analysis of the actin cortex in interphase and mitosis." <i>J Cell Sci</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/35892282 35892282]; doi: [https://dx.doi.org/10.1242/jcs.259993 10.1242/jcs.259993]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35892282 36]. | ||
+ | #Kramer MH, <i>et al.</i> (2022) "Proteomic and phosphoproteomic landscapes of acute myeloid leukemia." <i>Blood</i> <b>140</b>(13):1533–1548; PMID: [https://pubmed.ncbi.nlm.nih.gov/35895896 35895896]; doi: [https://dx.doi.org/10.1182/blood.2022016033 10.1182/blood.2022016033]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35895896 266]. | ||
#Ferraro G, <i>et al.</i> (2022) "A Proteomic Platform Unveils the Brain Glycogen Phosphorylase as a Potential Therapeutic Target for Glioblastoma Multiforme." <i>Int J Mol Sci</i> <b>23</b>(15):; PMID: [https://pubmed.ncbi.nlm.nih.gov/35897773 35897773]; doi: [https://dx.doi.org/10.3390/ijms23158200 10.3390/ijms23158200]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35897773 104]. | #Ferraro G, <i>et al.</i> (2022) "A Proteomic Platform Unveils the Brain Glycogen Phosphorylase as a Potential Therapeutic Target for Glioblastoma Multiforme." <i>Int J Mol Sci</i> <b>23</b>(15):; PMID: [https://pubmed.ncbi.nlm.nih.gov/35897773 35897773]; doi: [https://dx.doi.org/10.3390/ijms23158200 10.3390/ijms23158200]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35897773 104]. | ||
#Li H, <i>et al.</i> (2022) "Global phosphoproteomic analysis identified key kinases regulating male meiosis in mouse." <i>Cell Mol Life Sci</i> <b>79</b>(8):467; PMID: [https://pubmed.ncbi.nlm.nih.gov/35930080 35930080]; doi: [https://dx.doi.org/10.1007/s00018-022-04507-8 10.1007/s00018-022-04507-8]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35930080 45]. | #Li H, <i>et al.</i> (2022) "Global phosphoproteomic analysis identified key kinases regulating male meiosis in mouse." <i>Cell Mol Life Sci</i> <b>79</b>(8):467; PMID: [https://pubmed.ncbi.nlm.nih.gov/35930080 35930080]; doi: [https://dx.doi.org/10.1007/s00018-022-04507-8 10.1007/s00018-022-04507-8]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35930080 45]. | ||
+ | #Blasco Tavares Pereira Lopes F, <i>et al.</i> (2022) "Temporal and Sex-Linked Protein Expression Dynamics in a Familial Model of Alzheimer's Disease." <i>Mol Cell Proteomics</i> <b>21</b>(9):100280; PMID: [https://pubmed.ncbi.nlm.nih.gov/35944844 35944844]; doi: [https://dx.doi.org/10.1016/j.mcpro.2022.100280 10.1016/j.mcpro.2022.100280]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35944844 48]. | ||
+ | #Chianese U, <i>et al.</i> (2022) "Histone lysine demethylase inhibition reprograms prostate cancer metabolism and mechanics." <i>Mol Metab</i> <b>64</b>:101561; PMID: [https://pubmed.ncbi.nlm.nih.gov/35944897 35944897]; doi: [https://dx.doi.org/10.1016/j.molmet.2022.101561 10.1016/j.molmet.2022.101561]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35944897 108]. | ||
+ | #Høyer H, <i>et al.</i> (2022) "Clinical characteristics and proteome modifications in two Charcot-Marie-Tooth families with the AARS1 Arg326Trp mutation." <i>BMC Neurol</i> <b>22</b>(1):299; PMID: [https://pubmed.ncbi.nlm.nih.gov/35971119 35971119]; doi: [https://dx.doi.org/10.1186/s12883-022-02828-6 10.1186/s12883-022-02828-6]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35971119 17]. | ||
#Zhang Y, <i>et al.</i> (2022) "Lysine Acetylome Profiling Reveals Diverse Functions of Acetylation in Deinococcus radiodurans." <i>Microbiol Spectr</i> <b></b>:e0101621; PMID: [https://pubmed.ncbi.nlm.nih.gov/35972276 35972276]; doi: [https://dx.doi.org/10.1128/spectrum.01016-21 10.1128/spectrum.01016-21]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35972276 18]. | #Zhang Y, <i>et al.</i> (2022) "Lysine Acetylome Profiling Reveals Diverse Functions of Acetylation in Deinococcus radiodurans." <i>Microbiol Spectr</i> <b></b>:e0101621; PMID: [https://pubmed.ncbi.nlm.nih.gov/35972276 35972276]; doi: [https://dx.doi.org/10.1128/spectrum.01016-21 10.1128/spectrum.01016-21]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35972276 18]. | ||
- | #Ji JX, <i>et al.</i> (2022) "The proteome of clear cell ovarian carcinoma." <i>J Pathol</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/36031730 36031730]; doi: [https://dx.doi.org/10.1002/path.6006 10.1002/path.6006]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36031730 | + | #Jha PK, <i>et al.</i> (2022) "Single-cell transcriptomics and cell-specific proteomics reveals molecular signatures of sleep." <i>Commun Biol</i> <b>5</b>(1):846; PMID: [https://pubmed.ncbi.nlm.nih.gov/35986171 35986171]; doi: [https://dx.doi.org/10.1038/s42003-022-03800-3 10.1038/s42003-022-03800-3]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35986171 18]. |
+ | #Ji JX, <i>et al.</i> (2022) "The proteome of clear cell ovarian carcinoma." <i>J Pathol</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/36031730 36031730]; doi: [https://dx.doi.org/10.1002/path.6006 10.1002/path.6006]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36031730 34]. | ||
#Pirhonen J, <i>et al.</i> (2022) "Lipid metabolic reprogramming extends beyond histological tumor demarcations in operable human pancreatic cancer." <i>Cancer Res</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/36054547 36054547]; doi: [https://dx.doi.org/10.1158/0008-5472.CAN-22-0396 10.1158/0008-5472.CAN-22-0396]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36054547 64]. | #Pirhonen J, <i>et al.</i> (2022) "Lipid metabolic reprogramming extends beyond histological tumor demarcations in operable human pancreatic cancer." <i>Cancer Res</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/36054547 36054547]; doi: [https://dx.doi.org/10.1158/0008-5472.CAN-22-0396 10.1158/0008-5472.CAN-22-0396]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36054547 64]. | ||
+ | #Singh SS, <i>et al.</i> (2022) "Multi-omics analysis to characterize molecular adaptation of Entamoeba histolytica during serum stress." <i>Proteomics</i> <b></b>:e2200148; PMID: [https://pubmed.ncbi.nlm.nih.gov/36066285 36066285]; doi: [https://dx.doi.org/10.1002/pmic.202200148 10.1002/pmic.202200148]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36066285 9]. | ||
+ | #Pechincha C, <i>et al.</i> (2022) "Lysosomal enzyme trafficking factor LYSET enables nutritional usage of extracellular proteins." <i>Science</i> <b>378</b>(6615):eabn5637; PMID: [https://pubmed.ncbi.nlm.nih.gov/36074822 36074822]; doi: [https://dx.doi.org/10.1126/science.abn5637 10.1126/science.abn5637]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36074822 29]. | ||
+ | #Kohale IN, <i>et al.</i> (2022) "Identification of Src Family Kinases as Potential Therapeutic Targets for Chemotherapy-Resistant Triple Negative Breast Cancer." <i>Cancers (Basel)</i> <b>14</b>(17):; PMID: [https://pubmed.ncbi.nlm.nih.gov/36077757 36077757]; doi: [https://dx.doi.org/10.3390/cancers14174220 10.3390/cancers14174220]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36077757 36]. | ||
+ | #Tailor A, <i>et al.</i> (2022) "Ionizing radiation drives key regulators of antigen presentation and a global expansion of the immunopeptidome." <i>Mol Cell Proteomics</i> <b></b>:100410; PMID: [https://pubmed.ncbi.nlm.nih.gov/36089194 36089194]; doi: [https://dx.doi.org/10.1016/j.mcpro.2022.100410 10.1016/j.mcpro.2022.100410]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36089194 4]. | ||
+ | #Zhu P, <i>et al.</i> (2022) "An Integrated Proteomic Strategy to Identify SHP2 Substrates." <i>J Proteome Res</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/36103635 36103635]; doi: [https://dx.doi.org/10.1021/acs.jproteome.2c00481 10.1021/acs.jproteome.2c00481]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36103635 24]. | ||
+ | #Arora A, <i>et al.</i> (2022) "High-throughput identification of RNA localization elements in neuronal cells." <i>Nucleic Acids Res</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/36107770 36107770]; doi: [https://dx.doi.org/10.1093/nar/gkac763 10.1093/nar/gkac763]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36107770 24]. | ||
+ | #Sapao P, <i>et al.</i> (2022) "Reduced SPAG17 expression in systemic sclerosis triggers myofibroblast transition and drives fibrosis." <i>J Invest Dermatol</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/36116512 36116512]; doi: [https://dx.doi.org/10.1016/j.jid.2022.08.052 10.1016/j.jid.2022.08.052]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36116512 15]. | ||
+ | #Monks J, <i>et al.</i> (2022) "Perilipin-2 promotes lipid droplet-plasma membrane interactions that facilitate apocrine lipid secretion in secretory epithelial cells of the mouse mammary gland." <i>Front Cell Dev Biol</i> <b>10</b>:958566; PMID: [https://pubmed.ncbi.nlm.nih.gov/36158190 36158190]; doi: [https://dx.doi.org/10.3389/fcell.2022.958566 10.3389/fcell.2022.958566]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36158190 10]. | ||
+ | #Deng O, <i>et al.</i> (2022) "Integrated proteomics identifies PARP inhibitor-induced pro-survival signaling changes as potential vulnerabilities in ovarian cancer." <i>J Biol Chem</i> <b></b>:102550; PMID: [https://pubmed.ncbi.nlm.nih.gov/36183837 36183837]; doi: [https://dx.doi.org/10.1016/j.jbc.2022.102550 10.1016/j.jbc.2022.102550]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36183837 41]. | ||
+ | #Ventura PMO, <i>et al.</i> (2022) "Concomitant deletion of Ptpn6 and Ptpn11 in T cells fails to improve anticancer responses." <i>EMBO Rep</i> <b></b>:e55399; PMID: [https://pubmed.ncbi.nlm.nih.gov/36194675 36194675]; doi: [https://dx.doi.org/10.15252/embr.202255399 10.15252/embr.202255399]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36194675 6]. | ||
+ | #Bernhardt M, <i>et al.</i> (2022) "Extending the Mass Spectrometry-Detectable Landscape of MHC Peptides by Use of Restricted Access Material." <i>Anal Chem</i> <b>94</b>(41):14214–14222; PMID: [https://pubmed.ncbi.nlm.nih.gov/36194871 36194871]; doi: [https://dx.doi.org/10.1021/acs.analchem.2c02198 10.1021/acs.analchem.2c02198]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36194871 76]. | ||
+ | #Léger T, <i>et al.</i> (2022) "Fate and PPARγ and STATs-driven effects of the mitochondrial complex I inhibitor tebufenpyrad in liver cells revealed with multi-omics." <i>J Hazard Mater</i> <b>442</b>:130083; PMID: [https://pubmed.ncbi.nlm.nih.gov/36206710 36206710]; doi: [https://dx.doi.org/10.1016/j.jhazmat.2022.130083 10.1016/j.jhazmat.2022.130083]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36206710 96]. | ||
+ | #Noborn F, <i>et al.</i> (2022) "Subtyping of cardiac amyloidosis by mass spectrometry-based proteomics of endomyocardial biopsies." <i>Amyloid</i> <b></b>:1–13; PMID: [https://pubmed.ncbi.nlm.nih.gov/36209425 36209425]; doi: [https://dx.doi.org/10.1080/13506129.2022.2127088 10.1080/13506129.2022.2127088]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36209425 223]. | ||
+ | #Vilallongue N, <i>et al.</i> (2022) "Guidance landscapes unveiled by quantitative proteomics to control reinnervation in adult visual system." <i>Nat Commun</i> <b>13</b>(1):6040; PMID: [https://pubmed.ncbi.nlm.nih.gov/36229455 36229455]; doi: [https://dx.doi.org/10.1038/s41467-022-33799-4 10.1038/s41467-022-33799-4]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36229455 40]. | ||
+ | #Bracht T, <i>et al.</i> (2022) "Plasma Proteomics Enable Differentiation of Lung Adenocarcinoma from Chronic Obstructive Pulmonary Disease (COPD)." <i>Int J Mol Sci</i> <b>23</b>(19):; PMID: [https://pubmed.ncbi.nlm.nih.gov/36232544 36232544]; doi: [https://dx.doi.org/10.3390/ijms231911242 10.3390/ijms231911242]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36232544 171]. | ||
+ | #Elsnicova B, <i>et al.</i> (2022) "Desmin Knock-Out Cardiomyopathy: A Heart on the Verge of Metabolic Crisis." <i>Int J Mol Sci</i> <b>23</b>(19):; PMID: [https://pubmed.ncbi.nlm.nih.gov/36233322 36233322]; doi: [https://dx.doi.org/10.3390/ijms231912020 10.3390/ijms231912020]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/36233322 10]. |
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 datasets/papers contain serious errors in their metadata/methods sections. When using data from repositories, it is important to be skeptical of any experimental parameter (cell line, tissue type, modification reagents, quantitation methods, etc.) that may impact on your use of the data. We have corrected for as many of these errors as we could detect, but there is no way to be sure that we found them all. When attempting to analyze or reproduce results, keep in mind the likelihood that key parts of the experimental methods may have been recorded incorrectly in the associated metadata or manuscript.
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 Nov 18, 2022.