{ "bcoid": "GLY_000568", "title": "Mouse Proteoform Phosphorylation Citations (iPTMnet)", "description": "", "filename": "mouse_proteoform_citations_phosphorylation_iptmnet.csv", "filetype": "csv", "categories": { "species": "Mus musculus", "molecule": "Proteoform", "tags": "Phosphorylation Citations (iPTMnet)", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "A2A5R2-1...", "The phagosom..." ], [ "A2ADY9-1...", "Large-scale ..." ] ], "headers": [ "uniprotkb_ca...", "title..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "title" }, { "type": "string", "label": "journal_name" }, { "type": "string", "label": "publication_date" }, { "type": "string", "label": "authors" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" }, { "type": "string", "label": "src_xref_key" }, { "type": "string", "label": "src_xref_id" } ], [ "A2A5R2-1", "The phagosomal proteome in interferon-gamma-activated macrophages.", "Immunity", "2009 Jan 16", "Trost M, English L, Lemieux S, Courcelles M, Desjardins M, Thibault P", "protein_xref_pubmed", "19144319", "protein_xref_iptmnet", "A2A5R2" ], [ "A2ADY9-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "A2ADY9" ], [ "A2AG50-1", "Comprehensive identification of phosphorylation sites in postsynaptic density preparations.", "Molecular & cellular proteomics : MCP", "2006 May", "Trinidad JC, Specht CG, Thalhammer A, Schoepfer R, Burlingame AL", "protein_xref_pubmed", "16452087", "protein_xref_iptmnet", "A2AG50" ], [ "A2AJI0-1", "The phagosomal proteome in interferon-gamma-activated macrophages.", "Immunity", "2009 Jan 16", "Trost M, English L, Lemieux S, Courcelles M, Desjardins M, Thibault P", "protein_xref_pubmed", "19144319", "protein_xref_iptmnet", "A2AJI0" ], [ "A2ALU4-1", "Qualitative and quantitative analyses of protein phosphorylation in naive and stimulated mouse synaptosomal preparations.", "Molecular & cellular proteomics : MCP", "2007 Feb", "Munton RP, Tweedie-Cullen R, Livingstone-Zatchej M, Weinandy F, Waidelich M, Longo D, Gehrig P, Potthast F, Rutishauser D, Gerrits B, Panse C, Schlapbach R, Mansuy IM", "protein_xref_pubmed", "17114649", "protein_xref_iptmnet", "A2ALU4" ], [ "A2ALU4-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "A2ALU4" ], [ "A2AN08-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "A2AN08" ], [ "A2AQ25-1", "Qualitative and quantitative analyses of protein phosphorylation in naive and stimulated mouse synaptosomal preparations.", "Molecular & cellular proteomics : MCP", "2007 Feb", "Munton RP, Tweedie-Cullen R, Livingstone-Zatchej M, Weinandy F, Waidelich M, Longo D, Gehrig P, Potthast F, Rutishauser D, Gerrits B, Panse C, Schlapbach R, Mansuy IM", "protein_xref_pubmed", "17114649", "protein_xref_iptmnet", "A2AQ25" ], [ "A2AQ25-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "A2AQ25" ], [ "A3KGS3-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "A3KGS3" ], [ "O08537-1", "Cloning, chromosomal localization, and functional analysis of the murine estrogen receptor beta.", "Molecular endocrinology (Baltimore, Md.)", "1997 Mar", "Tremblay GB, Tremblay A, Copeland NG, Gilbert DJ, Jenkins NA, Labrie F, Giguere V", "protein_xref_pubmed", "9058381", "protein_xref_iptmnet", "O08537" ], [ "O08537-1", "Alternative O-glycosylation/O-phosphorylation of the murine estrogen receptor beta.", "Biochemistry", "2000 Sep 26", "Cheng X, Cole RN, Zaia J, Hart GW", "protein_xref_pubmed", "10995228", "protein_xref_iptmnet", "O08537" ], [ "O08537-1", "Ligand-independent activation of the estrogen receptors alpha and beta by mutations of a conserved tyrosine can be abolished by antiestrogens.", "Cancer research", "1998 Mar 1", "Tremblay GB, Tremblay A, Labrie F, Giguere V", "protein_xref_pubmed", "9500442", "protein_xref_iptmnet", "O08537" ], [ "O08539-1", "Qualitative and quantitative analyses of protein phosphorylation in naive and stimulated mouse synaptosomal preparations.", "Molecular & cellular proteomics : MCP", "2007 Feb", "Munton RP, Tweedie-Cullen R, Livingstone-Zatchej M, Weinandy F, Waidelich M, Longo D, Gehrig P, Potthast F, Rutishauser D, Gerrits B, Panse C, Schlapbach R, Mansuy IM", "protein_xref_pubmed", "17114649", "protein_xref_iptmnet", "O08539" ], [ "O08539-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O08539" ], [ "O08539-1", "Phosphoproteomic analysis of the developing mouse brain.", "Molecular & cellular proteomics : MCP", "2004 Nov", "Ballif BA, Villen J, Beausoleil SA, Schwartz D, Gygi SP", "protein_xref_pubmed", "15345747", "protein_xref_iptmnet", "O08539" ], [ "O08547-1", "Qualitative and quantitative analyses of protein phosphorylation in naive and stimulated mouse synaptosomal preparations.", "Molecular & cellular proteomics : MCP", "2007 Feb", "Munton RP, Tweedie-Cullen R, Livingstone-Zatchej M, Weinandy F, Waidelich M, Longo D, Gehrig P, Potthast F, Rutishauser D, Gerrits B, Panse C, Schlapbach R, Mansuy IM", "protein_xref_pubmed", "17114649", "protein_xref_iptmnet", "O08547" ], [ "O08547-1", "The phagosomal proteome in interferon-gamma-activated macrophages.", "Immunity", "2009 Jan 16", "Trost M, English L, Lemieux S, Courcelles M, Desjardins M, Thibault P", "protein_xref_pubmed", "19144319", "protein_xref_iptmnet", "O08547" ], [ "O08547-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O08547" ], [ "O08550-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O08550" ], [ "O08553-1", "Quantitative analysis of both protein expression and serine / threonine post-translational modifications through stable isotope labeling with dithiothreitol.", "Proteomics", "2005 Feb", "Vosseller K, Hansen KC, Chalkley RJ, Trinidad JC, Wells L, Hart GW, Burlingame AL", "protein_xref_pubmed", "15648052", "protein_xref_iptmnet", "O08553" ], [ "O08553-1", "Phosphoproteomic analysis of the developing mouse brain.", "Molecular & cellular proteomics : MCP", "2004 Nov", "Ballif BA, Villen J, Beausoleil SA, Schwartz D, Gygi SP", "protein_xref_pubmed", "15345747", "protein_xref_iptmnet", "O08553" ], [ "O08553-1", "Comprehensive identification of phosphorylation sites in postsynaptic density preparations.", "Molecular & cellular proteomics : MCP", "2006 May", "Trinidad JC, Specht CG, Thalhammer A, Schoepfer R, Burlingame AL", "protein_xref_pubmed", "16452087", "protein_xref_iptmnet", "O08553" ], [ "O08553-1", "Qualitative and quantitative analyses of protein phosphorylation in naive and stimulated mouse synaptosomal preparations.", "Molecular & cellular proteomics : MCP", "2007 Feb", "Munton RP, Tweedie-Cullen R, Livingstone-Zatchej M, Weinandy F, Waidelich M, Longo D, Gehrig P, Potthast F, Rutishauser D, Gerrits B, Panse C, Schlapbach R, Mansuy IM", "protein_xref_pubmed", "17114649", "protein_xref_iptmnet", "O08553" ], [ "O08579-1", "Identification of tyrosine-phosphorylation sites in the nuclear membrane protein emerin.", "The FEBS journal", "2006 Jul", "Schlosser A, Amanchy R, Otto H", "protein_xref_pubmed", "16857009", "protein_xref_iptmnet", "O08579" ], [ "O08580-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O08580" ], [ "O08581-1", "Qualitative and quantitative analyses of protein phosphorylation in naive and stimulated mouse synaptosomal preparations.", "Molecular & cellular proteomics : MCP", "2007 Feb", "Munton RP, Tweedie-Cullen R, Livingstone-Zatchej M, Weinandy F, Waidelich M, Longo D, Gehrig P, Potthast F, Rutishauser D, Gerrits B, Panse C, Schlapbach R, Mansuy IM", "protein_xref_pubmed", "17114649", "protein_xref_iptmnet", "O08581" ], [ "O08582-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O08582" ], [ "O08582-1", "Qualitative and quantitative analyses of protein phosphorylation in naive and stimulated mouse synaptosomal preparations.", "Molecular & cellular proteomics : MCP", "2007 Feb", "Munton RP, Tweedie-Cullen R, Livingstone-Zatchej M, Weinandy F, Waidelich M, Longo D, Gehrig P, Potthast F, Rutishauser D, Gerrits B, Panse C, Schlapbach R, Mansuy IM", "protein_xref_pubmed", "17114649", "protein_xref_iptmnet", "O08582" ], [ "O08583-1", "The phagosomal proteome in interferon-gamma-activated macrophages.", "Immunity", "2009 Jan 16", "Trost M, English L, Lemieux S, Courcelles M, Desjardins M, Thibault P", "protein_xref_pubmed", "19144319", "protein_xref_iptmnet", "O08583" ], [ "O08586-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O08586" ], [ "O08586-1", "Enhanced Akt signaling is an early pro-survival response that reflects N-methyl-D-aspartate receptor activation in Huntington's disease knock-in striatal cells.", "The Journal of biological chemistry", "2003 Dec 12", "Gines S, Ivanova E, Seong IS, Saura CA, MacDonald ME", "protein_xref_pubmed", "14522959", "protein_xref_iptmnet", "O08586" ], [ "O08599-1", "Proteomic analysis of in vivo phosphorylated synaptic proteins.", "The Journal of biological chemistry", "2005 Feb 18", "Collins MO, Yu L, Coba MP, Husi H, Campuzano I, Blackstock WP, Choudhary JS, Grant SG", "protein_xref_pubmed", "15572359", "protein_xref_iptmnet", "O08599" ], [ "O08599-1", "Phosphorylation of Munc18 by protein kinase C regulates the kinetics of exocytosis.", "The Journal of biological chemistry", "2003 Mar 21", "Barclay JW, Craig TJ, Fisher RJ, Ciufo LF, Evans GJ, Morgan A, Burgoyne RD", "protein_xref_pubmed", "12519779", "protein_xref_iptmnet", "O08599" ], [ "O08599-1", "Physiological regulation of Munc18/nSec1 phosphorylation on serine-313.", "Journal of neurochemistry", "2003 Sep", "Craig TJ, Evans GJ, Morgan A", "protein_xref_pubmed", "12950453", "protein_xref_iptmnet", "O08599" ], [ "O08599-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O08599" ], [ "O08599-1", "Qualitative and quantitative analyses of protein phosphorylation in naive and stimulated mouse synaptosomal preparations.", "Molecular & cellular proteomics : MCP", "2007 Feb", "Munton RP, Tweedie-Cullen R, Livingstone-Zatchej M, Weinandy F, Waidelich M, Longo D, Gehrig P, Potthast F, Rutishauser D, Gerrits B, Panse C, Schlapbach R, Mansuy IM", "protein_xref_pubmed", "17114649", "protein_xref_iptmnet", "O08599" ], [ "O08599-1", "Regulation of exocytosis by cyclin-dependent kinase 5 via phosphorylation of Munc18.", "The Journal of biological chemistry", "1999 Feb 12", "Fletcher AI, Shuang R, Giovannucci DR, Zhang L, Bittner MA, Stuenkel EL", "protein_xref_pubmed", "9933594", "protein_xref_iptmnet", "O08599" ], [ "O08599-1", "Immunoaffinity profiling of tyrosine phosphorylation in cancer cells.", "Nature biotechnology", "2005 Jan", "Rush J, Moritz A, Lee KA, Guo A, Goss VL, Spek EJ, Zhang H, Zha XM, Polakiewicz RD, Comb MJ", "protein_xref_pubmed", "15592455", "protein_xref_iptmnet", "O08599" ], [ "O08605-1", "Phosphorylation of Mnk1 by caspase-activated Pak2/gamma-PAK inhibits phosphorylation and interaction of eIF4G with Mnk.", "The Journal of biological chemistry", "2004 Sep 10", "Orton KC, Ling J, Waskiewicz AJ, Cooper JA, Merrick WC, Korneeva NL, Rhoads RE, Sonenberg N, Traugh JA", "protein_xref_pubmed", "15234964", "protein_xref_iptmnet", "O08605" ], [ "O08605-1", "Phosphorylation of the cap-binding protein eukaryotic translation initiation factor 4E by protein kinase Mnk1 in vivo.", "Molecular and cellular biology", "1999 Mar", "Waskiewicz AJ, Johnson JC, Penn B, Mahalingam M, Kimball SR, Cooper JA", "protein_xref_pubmed", "10022874", "protein_xref_iptmnet", "O08605" ], [ "O08605-1", "Mitogen-activated protein kinases activate the serine/threonine kinases Mnk1 and Mnk2.", "The EMBO journal", "1997 Apr 15", "Waskiewicz AJ, Flynn A, Proud CG, Cooper JA", "protein_xref_pubmed", "9155017", "protein_xref_iptmnet", "O08605" ], [ "O08609-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O08609" ], [ "O08638-1", "Protein phosphorylation and expression profiling by Yin-yang multidimensional liquid chromatography (Yin-yang MDLC) mass spectrometry.", "Journal of proteome research", "2007 Jan", "Dai J, Jin WH, Sheng QH, Shieh CH, Wu JR, Zeng R", "protein_xref_pubmed", "17203969", "protein_xref_iptmnet", "O08638" ], [ "O08648-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O08648" ], [ "O08664-1", "Phosphoproteomic analysis of the developing mouse brain.", "Molecular & cellular proteomics : MCP", "2004 Nov", "Ballif BA, Villen J, Beausoleil SA, Schwartz D, Gygi SP", "protein_xref_pubmed", "15345747", "protein_xref_iptmnet", "O08664" ], [ "O08709-1", "Protein phosphorylation and expression profiling by Yin-yang multidimensional liquid chromatography (Yin-yang MDLC) mass spectrometry.", "Journal of proteome research", "2007 Jan", "Dai J, Jin WH, Sheng QH, Shieh CH, Wu JR, Zeng R", "protein_xref_pubmed", "17203969", "protein_xref_iptmnet", "O08709" ], [ "O08715-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O08715" ], [ "O08750-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O08750" ], [ "O08784-1", "The phagosomal proteome in interferon-gamma-activated macrophages.", "Immunity", "2009 Jan 16", "Trost M, English L, Lemieux S, Courcelles M, Desjardins M, Thibault P", "protein_xref_pubmed", "19144319", "protein_xref_iptmnet", "O08784" ], [ "O08784-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O08784" ], [ "O08784-1", "Phosphoproteomic analysis of the developing mouse brain.", "Molecular & cellular proteomics : MCP", "2004 Nov", "Ballif BA, Villen J, Beausoleil SA, Schwartz D, Gygi SP", "protein_xref_pubmed", "15345747", "protein_xref_iptmnet", "O08784" ], [ "O08785-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O08785" ], [ "O08788-1", "Protein phosphorylation and expression profiling by Yin-yang multidimensional liquid chromatography (Yin-yang MDLC) mass spectrometry.", "Journal of proteome research", "2007 Jan", "Dai J, Jin WH, Sheng QH, Shieh CH, Wu JR, Zeng R", "protein_xref_pubmed", "17203969", "protein_xref_iptmnet", "O08788" ], [ "O08796-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O08796" ], [ "O08843-1", "The phagosomal proteome in interferon-gamma-activated macrophages.", "Immunity", "2009 Jan 16", "Trost M, English L, Lemieux S, Courcelles M, Desjardins M, Thibault P", "protein_xref_pubmed", "19144319", "protein_xref_iptmnet", "O08843" ], [ "O08908-1", "Immunoaffinity profiling of tyrosine phosphorylation in cancer cells.", "Nature biotechnology", "2005 Jan", "Rush J, Moritz A, Lee KA, Guo A, Goss VL, Spek EJ, Zhang H, Zha XM, Polakiewicz RD, Comb MJ", "protein_xref_pubmed", "15592455", "protein_xref_iptmnet", "O08908" ], [ "O08919-1", "Qualitative and quantitative analyses of protein phosphorylation in naive and stimulated mouse synaptosomal preparations.", "Molecular & cellular proteomics : MCP", "2007 Feb", "Munton RP, Tweedie-Cullen R, Livingstone-Zatchej M, Weinandy F, Waidelich M, Longo D, Gehrig P, Potthast F, Rutishauser D, Gerrits B, Panse C, Schlapbach R, Mansuy IM", "protein_xref_pubmed", "17114649", "protein_xref_iptmnet", "O08919" ], [ "O09030-1", "Characterization of the cytoplasmic domain of interleukin-13 receptor-alpha.", "The Journal of biological chemistry", "1999 Jul 23", "Orchansky PL, Kwan R, Lee F, Schrader JW", "protein_xref_pubmed", "10409622", "protein_xref_iptmnet", "O09030" ], [ "O09044-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O09044" ], [ "O09106-1", "The phagosomal proteome in interferon-gamma-activated macrophages.", "Immunity", "2009 Jan 16", "Trost M, English L, Lemieux S, Courcelles M, Desjardins M, Thibault P", "protein_xref_pubmed", "19144319", "protein_xref_iptmnet", "O09106" ], [ "O09127-1", "Phosphorylation at Tyr-838 in the kinase domain of EphA8 modulates Fyn binding to the Tyr-615 site by enhancing tyrosine kinase activity.", "Oncogene", "1999 Sep 23", "Choi S, Park S", "protein_xref_pubmed", "10498895", "protein_xref_iptmnet", "O09127" ], [ "O09130-1", "The phagosomal proteome in interferon-gamma-activated macrophages.", "Immunity", "2009 Jan 16", "Trost M, English L, Lemieux S, Courcelles M, Desjardins M, Thibault P", "protein_xref_pubmed", "19144319", "protein_xref_iptmnet", "O09130" ], [ "O35071-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O35071" ], [ "O35082-1", "Qualitative and quantitative analyses of protein phosphorylation in naive and stimulated mouse synaptosomal preparations.", "Molecular & cellular proteomics : MCP", "2007 Feb", "Munton RP, Tweedie-Cullen R, Livingstone-Zatchej M, Weinandy F, Waidelich M, Longo D, Gehrig P, Potthast F, Rutishauser D, Gerrits B, Panse C, Schlapbach R, Mansuy IM", "protein_xref_pubmed", "17114649", "protein_xref_iptmnet", "O35082" ], [ "O35099-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O35099" ], [ "O35099-1", "Activation of apoptosis signal-regulating kinase 1 by the stress-induced activating phosphorylation of pre-formed oligomer.", "Journal of cellular physiology", "2002 Apr", "Tobiume K, Saitoh M, Ichijo H", "protein_xref_pubmed", "11920685", "protein_xref_iptmnet", "O35099" ], [ "O35130-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O35130" ], [ "O35136-1", "Qualitative and quantitative analyses of protein phosphorylation in naive and stimulated mouse synaptosomal preparations.", "Molecular & cellular proteomics : MCP", "2007 Feb", "Munton RP, Tweedie-Cullen R, Livingstone-Zatchej M, Weinandy F, Waidelich M, Longo D, Gehrig P, Potthast F, Rutishauser D, Gerrits B, Panse C, Schlapbach R, Mansuy IM", "protein_xref_pubmed", "17114649", "protein_xref_iptmnet", "O35136" ], [ "O35144-1", "Protein phosphorylation and expression profiling by Yin-yang multidimensional liquid chromatography (Yin-yang MDLC) mass spectrometry.", "Journal of proteome research", "2007 Jan", "Dai J, Jin WH, Sheng QH, Shieh CH, Wu JR, Zeng R", "protein_xref_pubmed", "17203969", "protein_xref_iptmnet", "O35144" ], [ "O35144-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O35144" ], [ "O35149-1", "The phagosomal proteome in interferon-gamma-activated macrophages.", "Immunity", "2009 Jan 16", "Trost M, English L, Lemieux S, Courcelles M, Desjardins M, Thibault P", "protein_xref_pubmed", "19144319", "protein_xref_iptmnet", "O35149" ], [ "O35177-1", "Profiling of tyrosine phosphorylation pathways in human cells using mass spectrometry.", "Proceedings of the National Academy of Sciences of the United States of America", "2003 Jan 21", "Salomon AR, Ficarro SB, Brill LM, Brinker A, Phung QT, Ericson C, Sauer K, Brock A, Horn DM, Schultz PG, Peters EC", "protein_xref_pubmed", "12522270", "protein_xref_iptmnet", "O35177" ], [ "O35218-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O35218" ], [ "O35218-1", "The phagosomal proteome in interferon-gamma-activated macrophages.", "Immunity", "2009 Jan 16", "Trost M, English L, Lemieux S, Courcelles M, Desjardins M, Thibault P", "protein_xref_pubmed", "19144319", "protein_xref_iptmnet", "O35218" ], [ "O35226-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O35226" ], [ "O35226-1", "Phosphoproteomic analysis of the developing mouse brain.", "Molecular & cellular proteomics : MCP", "2004 Nov", "Ballif BA, Villen J, Beausoleil SA, Schwartz D, Gygi SP", "protein_xref_pubmed", "15345747", "protein_xref_iptmnet", "O35226" ], [ "O35280-1", "Inhibition of Chk1 by activated PKB/Akt.", "Cell cycle (Georgetown, Tex.)", "2004 May", "King FW, Skeen J, Hay N, Shtivelman E", "protein_xref_pubmed", "15107605", "protein_xref_iptmnet", "O35280" ], [ "O35280-1", "ATM and ATR substrate analysis reveals extensive protein networks responsive to DNA damage.", "Science (New York, N.Y.)", "2007 May 25", "Matsuoka S, Ballif BA, Smogorzewska A, McDonald ER 3rd, Hurov KE, Luo J, Bakalarski CE, Zhao Z, Solimini N, Lerenthal Y, Shiloh Y, Gygi SP, Elledge SJ", "protein_xref_pubmed", "17525332", "protein_xref_iptmnet", "O35280" ], [ "O35280-1", "A role for proapoptotic BID in the DNA-damage response.", "Cell", "2005 Aug 26", "Zinkel SS, Hurov KE, Ong C, Abtahi FM, Gross A, Korsmeyer SJ", "protein_xref_pubmed", "16122425", "protein_xref_iptmnet", "O35280" ], [ "O35295-1", "Comprehensive identification of phosphorylation sites in postsynaptic density preparations.", "Molecular & cellular proteomics : MCP", "2006 May", "Trinidad JC, Specht CG, Thalhammer A, Schoepfer R, Burlingame AL", "protein_xref_pubmed", "16452087", "protein_xref_iptmnet", "O35295" ], [ "O35295-1", "Protein phosphorylation and expression profiling by Yin-yang multidimensional liquid chromatography (Yin-yang MDLC) mass spectrometry.", "Journal of proteome research", "2007 Jan", "Dai J, Jin WH, Sheng QH, Shieh CH, Wu JR, Zeng R", "protein_xref_pubmed", "17203969", "protein_xref_iptmnet", "O35295" ], [ "O35295-1", "Large-scale phosphorylation analysis of mouse liver.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 Jan 30", "Villen J, Beausoleil SA, Gerber SA, Gygi SP", "protein_xref_pubmed", "17242355", "protein_xref_iptmnet", "O35295" ], [ "O35295-1", "The phagosomal proteome in interferon-gamma-activated macrophages.", "Immunity", "2009 Jan 16", "Trost M, English L, Lemieux S, Courcelles M, Desjardins M, Thibault P", "protein_xref_pubmed", "19144319", "protein_xref_iptmnet", "O35295" ] ] }, "readme": "Name\n - Mouse Proteoform Phosphorylation Citations (iPTMnet)\n\nVersion\n - 1.11.2\n\nCreated on\n - 2021-06-03T17:31:30.200524\n\nModified on\n - 2021-10-15T16:20:18.973267\n\nCreated by\n - [jeetvora@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Amanda Bell [amandab2140@gwu.edu], Jonathon Keeney [keeneyjg@gwu.edu], Millicent Quartey [mquartey@email.gwu.edu]\n\nAuthors\n - \n\nChecksum\n - \n\nExecution Domain\n Scripts\n\n Software Prerequisites\n\nI/O Domain\n Output Subdomain\n Name: mouse_proteoform_citations_phosphorylation_iptmnet.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.11.2/reviewed/mouse_proteoform_citations_phosphorylation_iptmnet.csv\n Name: mouse_proteoform_citations_phosphorylation_iptmnet.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.11.2/reviewed/mouse_proteoform_citations_phosphorylation_iptmnet.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"16\"\n Name: \"motif_start\"\n Description: \"\"\n Unique Values: \"23\"\n Name: \"filter_flags\"\n Description: \"Filter tags/flags assigned to the mutation entries that have passed the mutation filter criteria\"\n Unique Values: \"19\"\n Name: \"sift_prediction\"\n Description: \"The SIFT qualitative prediction is derived from this score such that substitutions with a score < 0.05 are called 'deleterious' and all others are called 'tolerated\"\n Unique Values: \"3\"\n Name: \"somatic_status\"\n Description: \"The status of the variant whether it is germline (somatic status =0) or somatic (somatic status =1) variant\"\n Unique Values: \"1\"\n Name: \"chr_pos\"\n Description: \"Chromosome Position of a gene\"\n Unique Values: \"19\"\n Name: \"chr_id\"\n Description: \"\"\n Unique Values: \"10\"\n Name: \"dbsnp_id\"\n Description: \"\"A reference SNP ID number\"\n Unique Values: \"19\"\n Name: \"evidence_ECO:0000313\"\n Description: \"A type of evidence that is imported information used in an automatic assertion\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"19\"\n Name: \"mim_id\"\n Description: \"Disease ID from the OMIM database\"\n Unique Values: \"1\"\n Name: \"description\"\n Description: \"\"\n Unique Values: \"1\"\n Name: \"begin_aa_pos\"\n Description: \"Start position of the amino acid in the sequence of a protein in UniProtKB\"\n Unique Values: \"18\"\n Name: \"cytogenic_band\"\n Description: \"One of the subregions of a chromosome visible microscopically after special staining\"\n Unique Values: \"14\"\n Name: \"aa_pos\"\n Description: \"Position of the amino acid in canonical sequence of protein in the UniProtKB database\"\n Unique Values: \"18\"\n Name: \"ref_aa\"\n Description: \"Reference amino acid residue\"\n Unique Values: \"9\"\n Name: \"sift_score\"\n Description: \"SIFT predicts whether an amino acid substitution is likely to affect protein function based on sequence homology and the physico-chemical similarity between the alternate amino acids. The data we provide for each amino acid substitution is a score and a qualitative prediction (either 'tolerated' or 'deleterious'). The score is the normalized probability that the amino acid change is tolerated so scores nearer zero are more likely to be deleterious. The qualitative prediction is derived from this score such that substitutions with a score < 0.05 are called 'deleterious' and all others are called 'tolerated\"\n Unique Values: \"10\"\n Name: \"alt_motif\"\n Description: \"Altered motif\"\n Unique Values: \"24\"\n Name: \"disease_xrefs\"\n Description: \"\"\n Unique Values: \"1\"\n Name: \"polyphen_score\"\n Description: \"The score assigned to a amino acid substitution by a tool called as PolyPhen (=Polymorphism Phenotyping) which predicts possible impact of an amino acid substitution on the structure and function of a human protein using straightforward physical and comparative considerations. The PolyPhen score ranges from 0.0 (tolerated) to 1.0 (deleterious). Variants with scores of 0.0 are predicted to be benign. Values closer to 1.0 are more confidently predicted to be deleterious\"\n Unique Values: \"1\"\n Name: \"polyphen_prediction\"\n Description: \"\"The PolyPhen prediction values are - greater than 0.908 - \"\"Probably Damaging\"\"; greater than 0.446 and less than or equal to 0.908 - \"\"Possibly Damaging\"\"; less than or equal to 0.446 - \"\"Benign\"\"\"\n Unique Values: \"1\"\n Name: \"is_known_glycoprotein\"\n Description: \"Yes or no flag to denote if a protein is experimentally proven glycoprotein\"\n Unique Values: \"1\"\n Name: \"alt_nt\"\n Description: \"Alternative nucleotide\"\n Unique Values: \"1\"\n Name: \"protein_name\"\n Description: \"Protein name in the UniProtKB\"\n Unique Values: \"16\"\n Name: \"disease_evidence_ECO:0000313\"\n Description: \"The evidence that could be a PMID or a ClinVar ID that associates disease with the variant\"\n Unique Values: \"1\"\n Name: \"effect\"\n Description: \"The effect on glycosylation or N-sequon due to variation at site of glycosylated amino acid.\"\n Unique Values: \"3\"\n Name: \"end_aa_pos\"\n Description: \"End position of the amino acid in the sequence of a protein in UniProtKB\"\n Unique Values: \"18\"\n Name: \"mutation_type\"\n Description: \"Denotes whether mutation was reported with reference to amino acid or nucleotide\"\n Unique Values: \"1\"\n Name: \"disease_description\"\n Description: \"The disease description and/or definition \"\n Unique Values: \"1\"\n Name: \"do_id\"\n Description: \"Disease Ontology identifier\"\n Unique Values: \"1\"\n Name: \"evidence_ECO:0000269\"\n Description: \"A type of experimental evidence that is used in a manual assertion. Usually the values are PMIDs\"\n Unique Values: \"1\"\n Name: \"ref_nt\"\n Description: \"Reference nucleotide\"\n Unique Values: \"4\"\n Name: \"disease\"\n Description: \"The disease name for the cell line\"\n Unique Values: \"1\"\n Name: \"alt_aa\"\n Description: \"Altered amino acid residue\"\n Unique Values: \"10\"\n Name: \"cosmic_id\"\n Description: \"Legacy mutation identifier (COSM) in Catalogue of Somatic Mutations in Cancer (COSMIC) represents existing COSM mutation identifiers. This identifier remains the same between different assemblies (GRCh37 and GRCh38). All the COSM ids at the same genomic location have been collapsed into one representative COSM id. These ids are maintained to help track existing mutations\"\n Unique Values: \"1\"\n Name: \"ref_motif\"\n Description: \"Reference motif\"\n Unique Values: \"20\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"2\"\n Name: \"minor_allelic_frequency\"\n Description: \"\"\n Unique Values: \"1\"\n Name: \"gene_name\"\n Description: \"\"Official gene name/symbol assigned to the gene. Human gene name/symbol are approved by the HUGO Gene Nomenclature Committee (HGNC) and mouse gene name are approved by the Mouse Genome Informatics (MGI)\"\n Unique Values: \"17\"\n Name: \"disease_evidence_ECO:0000269\"\n Description: \"The PMID evidence for the association of the disease with the variant.\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-1.11.2/reviewed/mouse_proteoform_citations_phosphorylation_iptmnet.csv" }