{ "bcoid": "GLY_000238", "title": "Rat UniProtKB Xref NCBI Gene", "description": "The Rat UniProtKB Xref NCBI Gene dataset contains rat [taxid:10116] UniProtKB canonical accessions cross-referenced ...", "filename": "rat_protein_xref_geneid.csv", "filetype": "csv", "categories": { "species": "Rattus norvegicus", "molecule": "Protein", "tags": "Ncbi Gene cross-references", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q5RJK9-1...", "301246..." ], [ "Q5RJK8-1...", "289125..." ] ], "headers": [ "uniprotkb_ca...", "database_id..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "database_id" }, { "type": "string", "label": "database_label" } ], [ "Q5RJK9-1", "301246", "" ], [ "Q5RJK8-1", "289125", "" ], [ "D3ZB44-1", "365192", "" ], [ "Q5RJK0-1", "315286", "" ], [ "Q5RJK3-1", "298081", "" ], [ "Q5RJK5-1", "297093", "" ], [ "D3ZB48-1", "313370", "" ], [ "Q5RJK6-1", "316376", "" ], [ "Q6MG55-1", "361796", "" ], [ "Q6MG56-1", "309609", "" ], [ "A0A0G2K0H3-1", "312781", "" ], [ "Q5XIH0-1", "315093", "" ], [ "Q6MG51-1", "406868", "" ], [ "F1M2W7-1", "301489", "" ], [ "Q6MG53-1", "406867", "" ], [ "D4AAV0-1", "364081", "" ], [ "P20961-1", "24617", "" ], [ "Q6MG59-1", "406865", "" ], [ "Q4KLP0-1", "361272", "" ], [ "M0RAP6-1", "680155", "" ], [ "M0RAP5-1", "300147", "" ], [ "A0A0G2JVG8-1", "405322", "" ], [ "F1M1W4-1", "361089", "" ], [ "P34997-1", "29363", "" ], [ "Q9WUD9-1", "83805", "" ], [ "Q8R553-1", "171393", "" ], [ "Q925Q4-1", "171158", "" ], [ "Q9QX69-1", "114515", "" ], [ "P30348-1", "114105", "" ], [ "Q9WUD2-1", "29465", "" ], [ "A0A0G2JUK9-1", "295735", "" ], [ "D3ZLV0-1", "296694", "" ], [ "D3ZLV5-1", "362530", "" ], [ "Q8VHI8-1", "140932", "" ], [ "D3ZLV9-1", "311114", "" ], [ "A0A096MJY4-1", "499497", "" ], [ "O88181-1", "65050", "" ], [ "A0A096MJY1-1", "691984", "" ], [ "Q2KMM2-1", "287427", "" ], [ "Q2KN99-1", "361828", "" ], [ "D4A838-1", "309221", "" ], [ "D4A838-1", "686787", "" ], [ "Q5M808-1", "293103", "" ], [ "D3ZKU2-1", "293258", "" ], [ "O55043-1", "114559", "" ], [ "D4A831-1", "301309", "" ], [ "D4A832-1", "311170", "" ], [ "D3ZZY5-1", "100911519", "" ], [ "D3ZZY5-1", "293625", "" ], [ "D4A834-1", "295706", "" ], [ "B0JYS4-1", "499280", "" ], [ "O54783-1", "29367", "" ], [ "Q6QI33-1", "689713", "" ], [ "M0RCZ7-1", "103690289", "" ], [ "M0RCZ7-1", "296356", "" ], [ "M0RCZ2-1", "100910047", "" ], [ "P01946-1", "25632", "" ], [ "P01946-1", "360504", "" ], [ "M0RCZ1-1", "300600", "" ], [ "P56571-1", "294326", "" ], [ "P20646-1", "56780", "" ], [ "P56574-1", "361596", "" ], [ "Q5BK10-1", "362701", "" ], [ "O35152-1", "54400", "" ], [ "P48965-1", "171102", "" ], [ "M0R7U6-1", "503306", "" ], [ "Q6P7Q1-1", "362704", "" ], [ "P48966-1", "171103", "" ], [ "P48961-1", "25193", "" ], [ "O35158-1", "50938", "" ], [ "M0R7U1-1", "365985", "" ], [ "Q6P7Q4-1", "294320", "" ], [ "F1M4Y5-1", "294388", "" ], [ "Q6AY39-1", "310508", "" ], [ "Q14U74-1", "688673", "" ], [ "Q5M807-1", "407784", "" ], [ "P02764-1", "24614", "" ], [ "P02767-1", "24856", "" ], [ "D3ZNX2-1", "311327", "" ], [ "D4A4W8-1", "292301", "" ], [ "Q6AYD2-1", "294025", "" ], [ "D4A4W0-1", "293781", "" ], [ "D4A4W1-1", "681398", "" ], [ "A0A0G2K2F3-1", "102554371", "" ] ] }, "readme": "Name\n - Rat UniProtKB Xref NCBI Gene\n\nVersion\n - 1.5.23\n\nCreated on\n - 2019-09-06T14:06:38.965792\n\nModified on\n - 2020-04-10T11:56:11.287893\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Xavier Holmes [xavierh@email.gwu.edu]\n\nAuthors\n - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n - \n\nUsability Domain\n - The Rat UniProtKB Xref NCBI Gene dataset contains rat [taxid:10116] UniProtKB canonical accessions cross-referenced to NCBI Gene database accessions/identifiers. The dataset is derived from 2019-05 UniProtKB release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\n - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.\n\nDescription Domain\n Keywords\n - gene id\n - NCBI gene\n - cross-reference\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB canonical accessions that are cross-referenced to NCBI Gene database accessions/identifiers from the triplestore containing triples from nt file and extracts the data as a csv dataset\n\nExecution Domain\n Scripts - https://github.com/GW-HIVE/glygen-backend-integration/blob/master/pipeline/integrator/make-protein-dataset.py\n\n\n Software Prerequisites\n Name: Python\n Version: 2.7.5\n URI: https://www.python.org/download/releases/2.7.5/\n\nI/O Domain\n Input Subdomain\n Name: uniprot-proteome-rattus-norvegicus.nt\n URI: https://data.glygen.org/ln2data/releases/data/v-1.5.23/source/uniprot-proteome-rattus-norvegicus.nt\n Name: rat_protein_masterlist.csv\n URI: https://data.glygen.org/ln2data/releases/data/v-1.5.23/reviewed/rat_protein_masterlist.csv\n Output Subdomain\n Name: rat_protein_xref_geneid.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.5.23/reviewed/rat_protein_xref_geneid.csv\n Name: rat_protein_xref_geneid.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.5.23/reviewed/rat_protein_xref_geneid.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"Accession assigned to the protein isoform chosen to be the canonical sequence to which all positional annotation refers in UniProtKB database\"\n Unique Values: \"15787\"\n Name: \"database_label\"\n Description: \"Label or name assigned to the corresponding identifier in the source database\"\n Unique Values: \"1\"\n Name: \"database_id\"\n Description: \"Identifier in the database\"\n Unique Values: \"16392\"", "downloadurl": "/ln2data/releases/data/v-1.5.23/reviewed/rat_protein_xref_geneid.csv" }