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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 Feb | + | 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 Feb 27, 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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#Bennike TB, <i>et al.</i> (2017) "Proteome Analysis of Rheumatoid Arthritis Gut Mucosa." <i>J Proteome Res</i> <b>16</b>(1):346–354; PMID: [https://pubmed.ncbi.nlm.nih.gov/27627584 27627584]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00598 10.1021/acs.jproteome.6b00598]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/27627584 33]. | #Bennike TB, <i>et al.</i> (2017) "Proteome Analysis of Rheumatoid Arthritis Gut Mucosa." <i>J Proteome Res</i> <b>16</b>(1):346–354; PMID: [https://pubmed.ncbi.nlm.nih.gov/27627584 27627584]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00598 10.1021/acs.jproteome.6b00598]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/27627584 33]. | ||
#Altmann C, <i>et al.</i> (2016) "Progranulin overexpression in sensory neurons attenuates neuropathic pain in mice: Role of autophagy." <i>Neurobiol Dis</i> <b>96</b>:294–311; PMID: [https://pubmed.ncbi.nlm.nih.gov/27629805 27629805]; doi: [https://dx.doi.org/10.1016/j.nbd.2016.09.010 10.1016/j.nbd.2016.09.010]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/27629805 12]. | #Altmann C, <i>et al.</i> (2016) "Progranulin overexpression in sensory neurons attenuates neuropathic pain in mice: Role of autophagy." <i>Neurobiol Dis</i> <b>96</b>:294–311; PMID: [https://pubmed.ncbi.nlm.nih.gov/27629805 27629805]; doi: [https://dx.doi.org/10.1016/j.nbd.2016.09.010 10.1016/j.nbd.2016.09.010]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/27629805 12]. | ||
+ | #Murthy KR, <i>et al.</i> (2016) "A Comprehensive Proteomics Analysis of the Human Iris Tissue: Ready to Embrace Postgenomics Precision Medicine in Ophthalmology?" <i>OMICS</i> <b>20</b>(9):510–9; PMID: [https://pubmed.ncbi.nlm.nih.gov/27631190 27631190]; doi: [https://dx.doi.org/10.1089/omi.2016.0100 10.1089/omi.2016.0100]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/27631190 2]. | ||
#Musunuri S, <i>et al.</i> (2016) "Increased Levels of Extracellular Microvesicle Markers and Decreased Levels of Endocytic/Exocytic Proteins in the Alzheimer's Disease Brain." <i>J Alzheimers Dis</i> <b>54</b>(4):1671–1686; PMID: [https://pubmed.ncbi.nlm.nih.gov/27636840 27636840]; doi: [https://dx.doi.org/10.3233/JAD-160271 10.3233/JAD-160271]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/27636840 107]. | #Musunuri S, <i>et al.</i> (2016) "Increased Levels of Extracellular Microvesicle Markers and Decreased Levels of Endocytic/Exocytic Proteins in the Alzheimer's Disease Brain." <i>J Alzheimers Dis</i> <b>54</b>(4):1671–1686; PMID: [https://pubmed.ncbi.nlm.nih.gov/27636840 27636840]; doi: [https://dx.doi.org/10.3233/JAD-160271 10.3233/JAD-160271]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/27636840 107]. | ||
#Eyckerman S, <i>et al.</i> (2016) "Intelligent Mixing of Proteomes for Elimination of False Positives in Affinity Purification-Mass Spectrometry." <i>J Proteome Res</i> <b>15</b>(10):3929–3937; PMID: [https://pubmed.ncbi.nlm.nih.gov/27640904 27640904]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00517 10.1021/acs.jproteome.6b00517]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/27640904 95]. | #Eyckerman S, <i>et al.</i> (2016) "Intelligent Mixing of Proteomes for Elimination of False Positives in Affinity Purification-Mass Spectrometry." <i>J Proteome Res</i> <b>15</b>(10):3929–3937; PMID: [https://pubmed.ncbi.nlm.nih.gov/27640904 27640904]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00517 10.1021/acs.jproteome.6b00517]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/27640904 95]. | ||
Line 1,477: | Line 1,478: | ||
#Diaz-Vera J, <i>et al.</i> (2017) "A proteomic approach to identify endosomal cargoes controlling cancer invasiveness." <i>J Cell Sci</i> <b>130</b>(4):697–711; PMID: [https://pubmed.ncbi.nlm.nih.gov/28062852 28062852]; doi: [https://dx.doi.org/10.1242/jcs.190835 10.1242/jcs.190835]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/28062852 106]. | #Diaz-Vera J, <i>et al.</i> (2017) "A proteomic approach to identify endosomal cargoes controlling cancer invasiveness." <i>J Cell Sci</i> <b>130</b>(4):697–711; PMID: [https://pubmed.ncbi.nlm.nih.gov/28062852 28062852]; doi: [https://dx.doi.org/10.1242/jcs.190835 10.1242/jcs.190835]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/28062852 106]. | ||
#Pietzner M, <i>et al.</i> (2017) "Plasma proteome and metabolome characterization of an experimental human thyrotoxicosis model." <i>BMC Med</i> <b>15</b>(1):6; PMID: [https://pubmed.ncbi.nlm.nih.gov/28065164 28065164]; doi: [https://dx.doi.org/10.1186/s12916-016-0770-8 10.1186/s12916-016-0770-8]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/28065164 80]. | #Pietzner M, <i>et al.</i> (2017) "Plasma proteome and metabolome characterization of an experimental human thyrotoxicosis model." <i>BMC Med</i> <b>15</b>(1):6; PMID: [https://pubmed.ncbi.nlm.nih.gov/28065164 28065164]; doi: [https://dx.doi.org/10.1186/s12916-016-0770-8 10.1186/s12916-016-0770-8]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/28065164 80]. | ||
- | #Kreutz D, <i>et al.</i> (2017) "Response Profiling Using Shotgun Proteomics Enables Global Metallodrug Mechanisms of Action To Be Established." <i>Chemistry</i> <b>23</b>(8):1881–1890; PMID: [https://pubmed.ncbi.nlm.nih.gov/28071820 28071820]; doi: [https://dx.doi.org/10.1002/chem.201604516 10.1002/chem.201604516]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/28071820 | + | #Kreutz D, <i>et al.</i> (2017) "Response Profiling Using Shotgun Proteomics Enables Global Metallodrug Mechanisms of Action To Be Established." <i>Chemistry</i> <b>23</b>(8):1881–1890; PMID: [https://pubmed.ncbi.nlm.nih.gov/28071820 28071820]; doi: [https://dx.doi.org/10.1002/chem.201604516 10.1002/chem.201604516]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/28071820 30]. |
#Xing F, <i>et al.</i> (2017) "The Anti-Warburg Effect Elicited by the cAMP-PGC1α Pathway Drives Differentiation of Glioblastoma Cells into Astrocytes." <i>Cell Rep</i> <b>18</b>(2):468–481; PMID: [https://pubmed.ncbi.nlm.nih.gov/28076790 28076790]; doi: [https://dx.doi.org/10.1016/j.celrep.2016.12.037 10.1016/j.celrep.2016.12.037]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/28076790 60]. | #Xing F, <i>et al.</i> (2017) "The Anti-Warburg Effect Elicited by the cAMP-PGC1α Pathway Drives Differentiation of Glioblastoma Cells into Astrocytes." <i>Cell Rep</i> <b>18</b>(2):468–481; PMID: [https://pubmed.ncbi.nlm.nih.gov/28076790 28076790]; doi: [https://dx.doi.org/10.1016/j.celrep.2016.12.037 10.1016/j.celrep.2016.12.037]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/28076790 60]. | ||
#Loroch S, <i>et al.</i> (2017) "Alterations of the platelet proteome in type I Glanzmann thrombasthenia caused by different homozygous delG frameshift mutations in ITGA2B." <i>Thromb Haemost</i> <b>117</b>(3):556–569; PMID: [https://pubmed.ncbi.nlm.nih.gov/28078347 28078347]; doi: [https://dx.doi.org/10.1160/TH16-07-0515 10.1160/TH16-07-0515]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/28078347 20]. | #Loroch S, <i>et al.</i> (2017) "Alterations of the platelet proteome in type I Glanzmann thrombasthenia caused by different homozygous delG frameshift mutations in ITGA2B." <i>Thromb Haemost</i> <b>117</b>(3):556–569; PMID: [https://pubmed.ncbi.nlm.nih.gov/28078347 28078347]; doi: [https://dx.doi.org/10.1160/TH16-07-0515 10.1160/TH16-07-0515]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/28078347 20]. | ||
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#Al Ahmad A, <i>et al.</i> (2019) "Papillary Renal Cell Carcinomas Rewire Glutathione Metabolism and Are Deficient in Both Anabolic Glucose Synthesis and Oxidative Phosphorylation." <i>Cancers (Basel)</i> <b>11</b>(9):; PMID: [https://pubmed.ncbi.nlm.nih.gov/31484429 31484429]; doi: [https://dx.doi.org/10.3390/cancers11091298 10.3390/cancers11091298]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31484429 33]. | #Al Ahmad A, <i>et al.</i> (2019) "Papillary Renal Cell Carcinomas Rewire Glutathione Metabolism and Are Deficient in Both Anabolic Glucose Synthesis and Oxidative Phosphorylation." <i>Cancers (Basel)</i> <b>11</b>(9):; PMID: [https://pubmed.ncbi.nlm.nih.gov/31484429 31484429]; doi: [https://dx.doi.org/10.3390/cancers11091298 10.3390/cancers11091298]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31484429 33]. | ||
#Liebelt F, <i>et al.</i> (2019) "The poly-SUMO2/3 protease SENP6 enables assembly of the constitutive centromere-associated network by group deSUMOylation." <i>Nat Commun</i> <b>10</b>(1):3987; PMID: [https://pubmed.ncbi.nlm.nih.gov/31485003 31485003]; doi: [https://dx.doi.org/10.1038/s41467-019-11773-x 10.1038/s41467-019-11773-x]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31485003 46]. | #Liebelt F, <i>et al.</i> (2019) "The poly-SUMO2/3 protease SENP6 enables assembly of the constitutive centromere-associated network by group deSUMOylation." <i>Nat Commun</i> <b>10</b>(1):3987; PMID: [https://pubmed.ncbi.nlm.nih.gov/31485003 31485003]; doi: [https://dx.doi.org/10.1038/s41467-019-11773-x 10.1038/s41467-019-11773-x]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31485003 46]. | ||
+ | #Hucke A, <i>et al.</i> (2019) "An integrative approach to cisplatin chronic toxicities in mice reveals importance of organic cation-transporter-dependent protein networks for renoprotection." <i>Arch Toxicol</i> <b>93</b>(10):2835–2848; PMID: [https://pubmed.ncbi.nlm.nih.gov/31493026 31493026]; doi: [https://dx.doi.org/10.1007/s00204-019-02557-9 10.1007/s00204-019-02557-9]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31493026 15]. | ||
#Harel M, <i>et al.</i> (2019) "Proteomics of Melanoma Response to Immunotherapy Reveals Mitochondrial Dependence." <i>Cell</i> <b>179</b>(1):236–250.e18; PMID: [https://pubmed.ncbi.nlm.nih.gov/31495571 31495571]; doi: [https://dx.doi.org/10.1016/j.cell.2019.08.012 10.1016/j.cell.2019.08.012]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31495571 27]. | #Harel M, <i>et al.</i> (2019) "Proteomics of Melanoma Response to Immunotherapy Reveals Mitochondrial Dependence." <i>Cell</i> <b>179</b>(1):236–250.e18; PMID: [https://pubmed.ncbi.nlm.nih.gov/31495571 31495571]; doi: [https://dx.doi.org/10.1016/j.cell.2019.08.012 10.1016/j.cell.2019.08.012]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31495571 27]. | ||
#Sleat DE, <i>et al.</i> (2019) "Analysis of Brain and Cerebrospinal Fluid from Mouse Models of the Three Major Forms of Neuronal Ceroid Lipofuscinosis Reveals Changes in the Lysosomal Proteome." <i>Mol Cell Proteomics</i> <b>18</b>(11):2244–2261; PMID: [https://pubmed.ncbi.nlm.nih.gov/31501224 31501224]; doi: [https://dx.doi.org/10.1074/mcp.RA119.001587 10.1074/mcp.RA119.001587]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31501224 132]. | #Sleat DE, <i>et al.</i> (2019) "Analysis of Brain and Cerebrospinal Fluid from Mouse Models of the Three Major Forms of Neuronal Ceroid Lipofuscinosis Reveals Changes in the Lysosomal Proteome." <i>Mol Cell Proteomics</i> <b>18</b>(11):2244–2261; PMID: [https://pubmed.ncbi.nlm.nih.gov/31501224 31501224]; doi: [https://dx.doi.org/10.1074/mcp.RA119.001587 10.1074/mcp.RA119.001587]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/31501224 132]. | ||
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#Braun F, <i>et al.</i> (2020) "The proteomic landscape of small urinary extracellular vesicles during kidney transplantation." <i>J Extracell Vesicles</i> <b>10</b>(1):e12026; PMID: [https://pubmed.ncbi.nlm.nih.gov/33304478 33304478]; doi: [https://dx.doi.org/10.1002/jev2.12026 10.1002/jev2.12026]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/33304478 89]. | #Braun F, <i>et al.</i> (2020) "The proteomic landscape of small urinary extracellular vesicles during kidney transplantation." <i>J Extracell Vesicles</i> <b>10</b>(1):e12026; PMID: [https://pubmed.ncbi.nlm.nih.gov/33304478 33304478]; doi: [https://dx.doi.org/10.1002/jev2.12026 10.1002/jev2.12026]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/33304478 89]. | ||
#Bailey A, <i>et al.</i> (2021) "Characterization of the Class I MHC Peptidome Resulting From DNCB Exposure of HaCaT Cells." <i>Toxicol Sci</i> <b>180</b>(1):136–147; PMID: [https://pubmed.ncbi.nlm.nih.gov/33372950 33372950]; doi: [https://dx.doi.org/10.1093/toxsci/kfaa184 10.1093/toxsci/kfaa184]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/33372950 35]. | #Bailey A, <i>et al.</i> (2021) "Characterization of the Class I MHC Peptidome Resulting From DNCB Exposure of HaCaT Cells." <i>Toxicol Sci</i> <b>180</b>(1):136–147; PMID: [https://pubmed.ncbi.nlm.nih.gov/33372950 33372950]; doi: [https://dx.doi.org/10.1093/toxsci/kfaa184 10.1093/toxsci/kfaa184]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/33372950 35]. | ||
+ | #Lepa C, <i>et al.</i> (2021) "TrkC Is Essential for Nephron Function and Trans-Activates Igf1R Signaling." <i>J Am Soc Nephrol</i> <b>32</b>(2):357–374; PMID: [https://pubmed.ncbi.nlm.nih.gov/33380522 33380522]; doi: [https://dx.doi.org/10.1681/ASN.2020040424 10.1681/ASN.2020040424]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/33380522 143]. | ||
#Tam V, <i>et al.</i> (2020) "DIPPER, a spatiotemporal proteomics atlas of human intervertebral discs for exploring ageing and degeneration dynamics." <i>Elife</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/33382035 33382035]; doi: [https://dx.doi.org/10.7554/eLife.64940 10.7554/eLife.64940]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/33382035 263]. | #Tam V, <i>et al.</i> (2020) "DIPPER, a spatiotemporal proteomics atlas of human intervertebral discs for exploring ageing and degeneration dynamics." <i>Elife</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/33382035 33382035]; doi: [https://dx.doi.org/10.7554/eLife.64940 10.7554/eLife.64940]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/33382035 263]. | ||
#Subbannayya Y, <i>et al.</i> (2020) "The Proteomic Landscape of Resting and Activated CD4+ T Cells Reveal Insights into Cell Differentiation and Function." <i>Int J Mol Sci</i> <b>22</b>(1):; PMID: [https://pubmed.ncbi.nlm.nih.gov/33383959 33383959]; doi: [https://dx.doi.org/10.3390/ijms22010275 10.3390/ijms22010275]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/33383959 3]. | #Subbannayya Y, <i>et al.</i> (2020) "The Proteomic Landscape of Resting and Activated CD4+ T Cells Reveal Insights into Cell Differentiation and Function." <i>Int J Mol Sci</i> <b>22</b>(1):; PMID: [https://pubmed.ncbi.nlm.nih.gov/33383959 33383959]; doi: [https://dx.doi.org/10.3390/ijms22010275 10.3390/ijms22010275]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/33383959 3]. | ||
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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]. | ||
- | #Braun H, <i>et al.</i> (2021) "Impact of DICER1 and DROSHA on the Angiogenic Capacity of Human Endothelial Cells." <i>Int J Mol Sci</i> <b>22</b>(18):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34576018 34576018]; doi: [https://dx.doi.org/10.3390/ijms22189855 10.3390/ijms22189855]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34576018 | + | #Braun H, <i>et al.</i> (2021) "Impact of DICER1 and DROSHA on the Angiogenic Capacity of Human Endothelial Cells." <i>Int J Mol Sci</i> <b>22</b>(18):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34576018 34576018]; doi: [https://dx.doi.org/10.3390/ijms22189855 10.3390/ijms22189855]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34576018 6]. |
#Amargant F, <i>et al.</i> (2021) "The human sperm basal body is a complex centrosome important for embryo preimplantation development." <i>Mol Hum Reprod</i> <b>27</b>(11):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34581808 34581808]; doi: [https://dx.doi.org/10.1093/molehr/gaab062 10.1093/molehr/gaab062]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34581808 18]. | #Amargant F, <i>et al.</i> (2021) "The human sperm basal body is a complex centrosome important for embryo preimplantation development." <i>Mol Hum Reprod</i> <b>27</b>(11):; PMID: [https://pubmed.ncbi.nlm.nih.gov/34581808 34581808]; doi: [https://dx.doi.org/10.1093/molehr/gaab062 10.1093/molehr/gaab062]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34581808 18]. | ||
#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]. | #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]. | ||
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#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]. | ||
- | #Zhang Y, <i>et al.</i> (2022) "TMT-based quantitative proteomic profiling of human monocyte-derived macrophages and foam cells." <i>Proteome Sci</i> <b>20</b>(1):1; PMID: [https://pubmed.ncbi.nlm.nih.gov/34980145 34980145]; doi: [https://dx.doi.org/10.1186/s12953-021-00183-x 10.1186/s12953-021-00183-x]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34980145 | + | #Zhang Y, <i>et al.</i> (2022) "TMT-based quantitative proteomic profiling of human monocyte-derived macrophages and foam cells." <i>Proteome Sci</i> <b>20</b>(1):1; PMID: [https://pubmed.ncbi.nlm.nih.gov/34980145 34980145]; doi: [https://dx.doi.org/10.1186/s12953-021-00183-x 10.1186/s12953-021-00183-x]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34980145 2]. |
#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]. | ||
#Zille M, <i>et al.</i> (2022) "Hemin-Induced Death Models Hemorrhagic Stroke and Is a Variant of Classical Neuronal Ferroptosis." <i>J Neurosci</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/34987108 34987108]; doi: [https://dx.doi.org/10.1523/JNEUROSCI.0923-20.2021 10.1523/JNEUROSCI.0923-20.2021]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34987108 28]. | #Zille M, <i>et al.</i> (2022) "Hemin-Induced Death Models Hemorrhagic Stroke and Is a Variant of Classical Neuronal Ferroptosis." <i>J Neurosci</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/34987108 34987108]; doi: [https://dx.doi.org/10.1523/JNEUROSCI.0923-20.2021 10.1523/JNEUROSCI.0923-20.2021]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/34987108 28]. | ||
- | #Buks R, <i>et al.</i> (2021) "Altered Ca<sup>2+</sup> Homeostasis in Red Blood Cells of Polycythemia Vera Patients Following Disturbed Organelle Sorting during Terminal Erythropoiesis." <i>Cells</i> <b>11</b>(1):; PMID: [https://pubmed.ncbi.nlm.nih.gov/35011611 35011611]; doi: [https://dx.doi.org/10.3390/cells11010049 10.3390/cells11010049]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35011611 | + | #Buks R, <i>et al.</i> (2021) "Altered Ca<sup>2+</sup> Homeostasis in Red Blood Cells of Polycythemia Vera Patients Following Disturbed Organelle Sorting during Terminal Erythropoiesis." <i>Cells</i> <b>11</b>(1):; PMID: [https://pubmed.ncbi.nlm.nih.gov/35011611 35011611]; doi: [https://dx.doi.org/10.3390/cells11010049 10.3390/cells11010049]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35011611 23]. |
#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]. | #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 12]. | #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 12]. | ||
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#Ali N, <i>et al.</i> (2022) "Proteomics profiling of human synovial fluid suggests increased protein interplay in early-osteoarthritis (OA) that is lost in late-stage OA." <i>Mol Cell Proteomics</i> <b></b>:100200; PMID: [https://pubmed.ncbi.nlm.nih.gov/35074580 35074580]; doi: [https://dx.doi.org/10.1016/j.mcpro.2022.100200 10.1016/j.mcpro.2022.100200]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35074580 61]. | #Ali N, <i>et al.</i> (2022) "Proteomics profiling of human synovial fluid suggests increased protein interplay in early-osteoarthritis (OA) that is lost in late-stage OA." <i>Mol Cell Proteomics</i> <b></b>:100200; PMID: [https://pubmed.ncbi.nlm.nih.gov/35074580 35074580]; doi: [https://dx.doi.org/10.1016/j.mcpro.2022.100200 10.1016/j.mcpro.2022.100200]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35074580 61]. | ||
#Yin H, <i>et al.</i> (2022) "A20 and ABIN-1 cooperate in balancing CBM complex-triggered NF-κB signaling in activated T cells." <i>Cell Mol Life Sci</i> <b>79</b>(2):112; PMID: [https://pubmed.ncbi.nlm.nih.gov/35099607 35099607]; doi: [https://dx.doi.org/10.1007/s00018-022-04154-z 10.1007/s00018-022-04154-z]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35099607 9]. | #Yin H, <i>et al.</i> (2022) "A20 and ABIN-1 cooperate in balancing CBM complex-triggered NF-κB signaling in activated T cells." <i>Cell Mol Life Sci</i> <b>79</b>(2):112; PMID: [https://pubmed.ncbi.nlm.nih.gov/35099607 35099607]; doi: [https://dx.doi.org/10.1007/s00018-022-04154-z 10.1007/s00018-022-04154-z]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35099607 9]. | ||
+ | #Krishnan RK, <i>et al.</i> (2021) "Revisiting the Role of <i>ß</i>-Tubulin in <i>Drosophila</i> Development: <i>β-tubulin60D</i> is not an Essential Gene, and its Novel <i>Pin</i> <sup><i>1</i></sup> Allele has a Tissue-Specific Dominant-Negative Impact." <i>Front Cell Dev Biol</i> <b>9</b>:787976; PMID: [https://pubmed.ncbi.nlm.nih.gov/35111755 35111755]; doi: [https://dx.doi.org/10.3389/fcell.2021.787976 10.3389/fcell.2021.787976]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35111755 6]. | ||
#Correll VL, <i>et al.</i> (2022) "Optimization of small extracellular vesicle isolation from expressed prostatic secretions in urine for in-depth proteomic analysis." <i>J Extracell Vesicles</i> <b>11</b>(2):e12184; PMID: [https://pubmed.ncbi.nlm.nih.gov/35119778 35119778]; doi: [https://dx.doi.org/10.1002/jev2.12184 10.1002/jev2.12184]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35119778 9]. | #Correll VL, <i>et al.</i> (2022) "Optimization of small extracellular vesicle isolation from expressed prostatic secretions in urine for in-depth proteomic analysis." <i>J Extracell Vesicles</i> <b>11</b>(2):e12184; PMID: [https://pubmed.ncbi.nlm.nih.gov/35119778 35119778]; doi: [https://dx.doi.org/10.1002/jev2.12184 10.1002/jev2.12184]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35119778 9]. | ||
+ | #Wang C, <i>et al.</i> (2022) "Stat4 rs7574865 polymorphism promotes the occurrence and progression of hepatocellular carcinoma via the Stat4/CYP2E1/FGL2 pathway." <i>Cell Death Dis</i> <b>13</b>(2):130; PMID: [https://pubmed.ncbi.nlm.nih.gov/35136014 35136014]; doi: [https://dx.doi.org/10.1038/s41419-022-04584-4 10.1038/s41419-022-04584-4]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35136014 16]. | ||
#Rezaei-Gazik M, <i>et al.</i> (2022) "Direct visualization of pre-protamine 2 detects protamine assembly failures and predicts ICSI success." <i>Mol Hum Reprod</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/35150275 35150275]; doi: [https://dx.doi.org/10.1093/molehr/gaac004 10.1093/molehr/gaac004]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35150275 24]. | #Rezaei-Gazik M, <i>et al.</i> (2022) "Direct visualization of pre-protamine 2 detects protamine assembly failures and predicts ICSI success." <i>Mol Hum Reprod</i>; PMID: [https://pubmed.ncbi.nlm.nih.gov/35150275 35150275]; doi: [https://dx.doi.org/10.1093/molehr/gaac004 10.1093/molehr/gaac004]; GPMDB: [https://gpmdb.thegpm.org/data/keyword/35150275 24]. |
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 Feb 27, 2022.