{ "bcoid": "GLY_000562", "title": "Rat Proteoform Glycosylation Citations (UniProtKB)", "description": "", "filename": "rat_proteoform_citations_glycosylation_uniprotkb.csv", "filetype": "csv", "categories": { "species": "Rattus norvegicus", "molecule": "Proteoform", "tags": "Citation Glycosylation Sites (UniProtKB)", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "P07725-1...", "..." ], [ "Q765A7-1...", "..." ] ], "headers": [ "uniprotkb_ca...", "glytoucan_ac..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "glytoucan_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" } ], [ "P07725-1", "", "Glycosylation sites identified by detection of glycosylated amino acids released from Edman degradation: the identification of Xaa-Pro-Xaa-Xaa as a motif for Thr-O-glycosylation.", "Biochemical and biophysical research communications", "1991 Aug 15", "Gooley AA, Classon BJ, Marschalek R, Williams KL", "protein_xref_pubmed", "1908233", "protein_xref_uniprotkb_gly", "P07725" ], [ "Q765A7-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "Q765A7" ], [ "Q6AY41-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "Q6AY41" ], [ "P15087-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "P15087" ], [ "Q9JJW1-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "Q9JJW1" ], [ "P19490-1", "", "Crystal structure of the glutamate receptor GluA1 N-terminal domain.", "The Biochemical journal", "2011 Sep 1", "Yao G, Zong Y, Gu S, Zhou J, Xu H, Mathews II, Jin R", "protein_xref_pubmed", "21639859", "protein_xref_uniprotkb_gly", "P19490" ], [ "Q63273-1", "", "Crystal structures of the glutamate receptor ion channel GluK3 and GluK5 amino-terminal domains.", "Journal of molecular biology", "2010 Dec 10", "Kumar J, Mayer ML", "protein_xref_pubmed", "20951142", "protein_xref_uniprotkb_gly", "Q63273" ], [ "P07340-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "P07340" ], [ "O54767-1", "", "Structural conservation of mouse and rat zona pellucida glycoproteins. Probing the native rat zona pellucida proteome by mass spectrometry.", "Biochemistry", "2005 Dec 20", "Boja ES, Hoodbhoy T, Garfield M, Fales HM", "protein_xref_pubmed", "16342937", "protein_xref_uniprotkb_gly", "O54767" ], [ "P10252-1", "", "Crystal structure and binding properties of the CD2 and CD244 (2B4)-binding protein, CD48.", "The Journal of biological chemistry", "2006 Sep 29", "Evans EJ, Castro MA, O'Brien R, Kearney A, Walsh H, Sparks LM, Tucknott MG, Davies EA, Carmo AM, van der Merwe PA, Stuart DI, Jones EY, Ladbury JE, Ikemizu S, Davis SJ", "protein_xref_pubmed", "16803907", "protein_xref_uniprotkb_gly", "P10252" ], [ "P14740-1", "", "Crystal structures of DPP-IV (CD26) from rat kidney exhibit flexible accommodation of peptidase-selective inhibitors.", "Biochemistry", "2006 Jun 20", "Longenecker KL, Stewart KD, Madar DJ, Jakob CG, Fry EH, Wilk S, Lin CW, Ballaron SJ, Stashko MA, Lubben TH, Yong H, Pireh D, Pei Z, Basha F, Wiedeman PE, von Geldern TW, Trevillyan JM, Stoll VS", "protein_xref_pubmed", "16768443", "protein_xref_uniprotkb_gly", "P14740" ], [ "Q6AYA5-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "Q6AYA5" ], [ "P23385-1", "", "Structural basis of glutamate recognition by a dimeric metabotropic glutamate receptor.", "Nature", "2000 Oct 26", "Kunishima N, Shimada Y, Tsuji Y, Sato T, Yamamoto M, Kumasaka T, Nakanishi S, Jingami H, Morikawa K", "protein_xref_pubmed", "11069170", "protein_xref_uniprotkb_gly", "P23385" ], [ "O35764-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "O35764" ], [ "P84039-1", "", "Characterization of nucleotide pyrophosphatase-5 as an oligomannosidic glycoprotein in rat brain.", "Biochemical and biophysical research communications", "2003 Sep 5", "Ohe Y, Ohnishi H, Okazawa H, Tomizawa K, Kobayashi H, Okawa K, Matozaki T", "protein_xref_pubmed", "12927778", "protein_xref_uniprotkb_gly", "P84039" ], [ "O35112-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "O35112" ], [ "P15693-1", "", "Crystal structure of rat intestinal alkaline phosphatase--role of crown domain in mammalian alkaline phosphatases.", "Journal of structural biology", "2013 Nov", "Ghosh K, Mazumder Tagore D, Anumula R, Lakshmaiah B, Kumar PP, Singaram S, Matan T, Kallipatti S, Selvam S, Krishnamurthy P, Ramarao M", "protein_xref_pubmed", "24076154", "protein_xref_uniprotkb_gly", "P15693" ], [ "P12939-1", "", "Discovery and confirmation of O-GlcNAcylated proteins in rat liver mitochondria by combination of mass spectrometry and immunological methods.", "PloS one", "2013", "Cao W, Cao J, Huang J, Yao J, Yan G, Xu H, Yang P", "protein_xref_pubmed", "24098488", "protein_xref_uniprotkb_gly", "P12939" ], [ "Q62765-1", "", "Structural characterization of recombinant soluble rat neuroligin 1: mapping of secondary structure and glycosylation by mass spectrometry.", "Biochemistry", "2004 Feb 17", "Hoffman RC, Jennings LL, Tsigelny I, Comoletti D, Flynn RE, Sudhof TC, Taylor P", "protein_xref_pubmed", "14769026", "protein_xref_uniprotkb_gly", "Q62765" ], [ "Q5FVQ0-1", "", "ZIP8 is an iron and zinc transporter whose cell-surface expression is up-regulated by cellular iron loading.", "The Journal of biological chemistry", "2012 Oct 5", "Wang CY, Jenkitkasemwong S, Duarte S, Sparkman BK, Shawki A, Mackenzie B, Knutson MD", "protein_xref_pubmed", "22898811", "protein_xref_uniprotkb_gly", "Q5FVQ0" ], [ "P01830-1", "", "Rat brain Thy-1 glycoprotein. The amino acid sequence, disulphide bonds and an unusual hydrophobic region.", "The Biochemical journal", "1981 Apr 1", "Campbell DG, Gagnon J, Reid KB, Williams AF", "protein_xref_pubmed", "6118137", "protein_xref_uniprotkb_gly", "P01830" ], [ "Q8VII6-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "Q8VII6" ], [ "P07756-1", "", "Discovery and confirmation of O-GlcNAcylated proteins in rat liver mitochondria by combination of mass spectrometry and immunological methods.", "PloS one", "2013", "Cao W, Cao J, Huang J, Yao J, Yan G, Xu H, Yang P", "protein_xref_pubmed", "24098488", "protein_xref_uniprotkb_gly", "P07756" ], [ "Q6AYH6-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "Q6AYH6" ], [ "P05371-1", "", "Biosynthesis and molecular cloning of sulfated glycoprotein 2 secreted by rat Sertoli cells.", "Biochemistry", "1987 Jun 16", "Collard MW, Griswold MD", "protein_xref_pubmed", "3651384", "protein_xref_uniprotkb_gly", "P05371" ], [ "P07861-1", "", "Molecular cloning and amino acid sequence of rat enkephalinase.", "Biochemical and biophysical research communications", "1987 Apr 14", "Malfroy B, Schofield PR, Kuang WJ, Seeburg PH, Mason AJ, Henzel WJ", "protein_xref_pubmed", "3555489", "protein_xref_uniprotkb_gly", "P07861" ], [ "Q64663-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, 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"Glycosylation sites flank phosphorylation sites on synapsin I: O-linked N-acetylglucosamine residues are localized within domains mediating synapsin I interactions.", "Journal of neurochemistry", "1999 Jul", "Cole RN, Hart GW", "protein_xref_pubmed", "10386995", "protein_xref_uniprotkb_gly", "P09951" ], [ "P19493-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "P19493" ], [ "P54290-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "P54290" ], [ "Q9EQV6-1", "", 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Probing the native rat zona pellucida proteome by mass spectrometry.", "Biochemistry", "2005 Dec 20", "Boja ES, Hoodbhoy T, Garfield M, Fales HM", "protein_xref_pubmed", "16342937", "protein_xref_uniprotkb_gly", "O54766" ], [ "O70244-1", "", "Amnionless-mediated glycosylation is crucial for cell surface targeting of cubilin in renal and intestinal cells.", "Scientific reports", "2018 Feb 5", "Udagawa T, Harita Y, Miura K, Mitsui J, Ode KL, Morishita S, Urae S, Kanda S, Kajiho Y, Tsurumi H, Ueda HR, Tsuji S, Saito A, Oka A", "protein_xref_pubmed", "29402915", "protein_xref_uniprotkb_gly", "O70244" ], [ "P25122-1", "", "N-Linked glycan site occupancy impacts the distribution of a potassium channel in the cell body and outgrowths of neuronal-derived cells.", "Biochimica et biophysica acta", "2014 Jan", "Hall MK, Weidner DA, Bernetski CJ, Schwalbe RA", "protein_xref_pubmed", "24161696", "protein_xref_uniprotkb_gly", "P25122" ], [ "Q80Z70-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "Q80Z70" ], [ "Q99ML5-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "Q99ML5" ], [ "P48284-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "P48284" ], [ "P15800-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "P15800" ], [ "P97710-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "P97710" ], [ "P47866-1", "", "The corticotropin-releasing factor receptor type 2a contains an N-terminal pseudo signal peptide.", "The Journal of biological chemistry", "2006 Aug 25", "Rutz C, Renner A, Alken M, Schulz K, Beyermann M, Wiesner B, Rosenthal W, Schulein R", "protein_xref_pubmed", "16766521", "protein_xref_uniprotkb_gly", "P47866" ], [ "P19491-1", "", "Subunit-selective N-terminal domain associations organize the formation of AMPA receptor heteromers.", "The EMBO journal", "2011 Mar 2", "Rossmann M, Sukumaran M, Penn AC, Veprintsev DB, Babu MM, Greger IH", "protein_xref_pubmed", "21317873", "protein_xref_uniprotkb_gly", "P19491" ], [ "O35795-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "O35795" ], [ "P13721-1", "", "Enzymatic basis for N-glycan sialylation: structure of rat alpha2,6-sialyltransferase (ST6GAL1) reveals conserved and unique features for glycan sialylation.", "The Journal of biological chemistry", "2013 Nov 29", "Meng L, Forouhar F, Thieker D, Gao Z, Ramiah A, Moniz H, Xiang Y, Seetharaman J, Milaninia S, Su M, Bridger R, Veillon L, Azadi P, Kornhaber G, Wells L, Montelione GT, Woods RJ, Tong L, Moremen KW", "protein_xref_pubmed", "24155237", "protein_xref_uniprotkb_gly", "P13721" ], [ "P05011-1", "", "Structure and expression in Escherichia coli of a cloned rat interferon-alpha gene.", "Nucleic acids research", "1984 Jan 25", "Dijkema R, Pouwels P, de Reus A, Schellekens H", "protein_xref_pubmed", "6320120", "protein_xref_uniprotkb_gly", "P05011" ], [ "P42264-1", "", "Crystal structures of the glutamate receptor ion channel GluK3 and GluK5 amino-terminal domains.", "Journal of molecular biology", "2010 Dec 10", "Kumar J, Mayer ML", "protein_xref_pubmed", "20951142", "protein_xref_uniprotkb_gly", "P42264" ], [ "P42264-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "P42264" ], [ "P97685-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "P97685" ], [ "Q68FQ2-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "Q68FQ2" ], [ "O70352-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "O70352" ], [ "P27615-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "P27615" ], [ "P09951-1", "", "Mapping sites of O-GlcNAc modification using affinity tags for serine and threonine post-translational modifications.", "Molecular & cellular proteomics : MCP", "2002 Oct", "Wells L, Vosseller K, Cole RN, Cronshaw JM, Matunis MJ, Hart GW", "protein_xref_pubmed", "12438562", "protein_xref_uniprotkb_gly", "P09951" ], [ "P70627-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "P70627" ], [ "Q1WIM1-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "Q1WIM1" ], [ "Q99MZ4-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "Q99MZ4" ], [ "P28471-1", "", "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.", "Journal of proteome research", "2013 Dec 6", "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ", "protein_xref_pubmed", "24090084", "protein_xref_uniprotkb_gly", "P28471" ] ] }, "readme": "Name\n - Rat Proteoform Glycosylation Citations (UniProtKB)\n\nVersion\n - 1.11.2\n\nCreated on\n - 2021-06-03T16:35:03.994318\n\nModified on\n - 2021-10-15T15:59:05.324610\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\nDescription Domain\n Keywords\n - citations\n - glycosylation\n - UniProtKB\n\nExecution Domain\n Scripts\n\n Software Prerequisites\n\nI/O Domain\n Output Subdomain\n Name: rat_proteoform_citations_glycosylation_uniprotkb.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.11.2/reviewed/rat_proteoform_citations_glycosylation_uniprotkb.csv\n Name: rat_proteoform_citations_glycosylation_uniprotkb.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.11.2/reviewed/rat_proteoform_citations_glycosylation_uniprotkb.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/rat_proteoform_citations_glycosylation_uniprotkb.csv" }