{ "bcoid": "GLY_000273", "title": "Rat UniProtKB Xref RGD", "description": "The Rat [taxid:10116] UniprotKB Xref RefSeq contains rat UniProtKB canonical accessions cross-referenced ...", "filename": "rat_protein_xref_rgd.csv", "filetype": "csv", "categories": { "species": "Rattus norvegicus", "molecule": "Protein", "tags": "Rgd cross-references", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q5RJK9-1...", "protein_xref..." ], [ "Q5RJK8-1...", "protein_xref..." ] ], "headers": [ "uniprotkb_ca...", "xref_key..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" }, { "type": "string", "label": "xref_label" } ], [ "Q5RJK9-1", "protein_xref_rgd", "1309689", "Polr1c" ], [ "Q5RJK8-1", "protein_xref_rgd", "1305030", "Acbd6" ], [ "D3ZG10-1", "protein_xref_rgd", "1307605", "Grap2" ], [ "D3ZB44-1", "protein_xref_rgd", "1306631", "Zfp324" ], [ "D3ZZY2-1", "protein_xref_rgd", "1359313", "Utp14a" ], [ "Q5RJK0-1", "protein_xref_rgd", "1311532", "Tmem106c" ], [ "Q5RJK3-1", "protein_xref_rgd", "1310735", "Trmt10b" ], [ "P30349-1", "protein_xref_rgd", "1311333", "Lta4h" ], [ "Q5RJK5-1", "protein_xref_rgd", "1549705", "Cbx3" ], [ "D3ZB48-1", "protein_xref_rgd", "1309987", "Hook1" ], [ "Q5RJK6-1", "protein_xref_rgd", "1306071", "Inpp1" ], [ "Q6MG55-1", "protein_xref_rgd", "1303164", "Abhd16a" ], [ "Q6MG56-1", "protein_xref_rgd", "1303333", "Ly6g6f" ], [ "A0A0G2K0H3-1", "protein_xref_rgd", "1304749", "Lrp6" ], [ "Q5XIH0-1", "protein_xref_rgd", "1359315", "Maf1" ], [ "Q6MG51-1", "protein_xref_rgd", "1303038", "G4" ], [ "F1M2W7-1", "protein_xref_rgd", "1309577", "Pi15" ], [ "Q6MG53-1", "protein_xref_rgd", "1303101", "Ly6g5b" ], [ "D4AAV0-1", "protein_xref_rgd", "1309645", "Irf6" ], [ "P20961-1", "protein_xref_rgd", "3249", "Serpine1" ], [ "Q6MG59-1", "protein_xref_rgd", "1303269", "Mpig6b" ], [ "Q4KLP0-1", "protein_xref_rgd", "1308092", "Dhtkd1" ], [ "M0RAP1-1", "protein_xref_rgd", "1589375", "Utf1" ], [ "M0RAP6-1", "protein_xref_rgd", "1595469", "Tasor" ], [ "A0A0G2JVG5-1", "protein_xref_rgd", "7572423", "LOC102552378" ], [ "M0RAP5-1", "protein_xref_rgd", "1307090", "Sbf1" ], [ "A0A0G2JVG8-1", "protein_xref_rgd", "1333914", "Olr410" ], [ "F1M1W4-1", "protein_xref_rgd", "1309716", "Ndfip2" ], [ "P34997-1", "protein_xref_rgd", "62010", "Cxcr5" ], [ "M0R5G7-1", "protein_xref_rgd", "7637527", "Krtap22-2" ], [ "Q9WUD9-1", "protein_xref_rgd", "620795", "Src" ], [ "M0R5G5-1", "protein_xref_rgd", "1588631", "Pkd1l2" ], [ "Q8R553-1", "protein_xref_rgd", "621153", "Clstn3" ], [ "Q925Q4-1", "protein_xref_rgd", "621748", "Gpha2" ], [ "Q9QX69-1", "protein_xref_rgd", "69416", "Lancl1" ], [ "P30348-1", "protein_xref_rgd", "70069", "Cxcl2" ], [ "Q9WUD2-1", "protein_xref_rgd", "3965", "Trpv2" ], [ "A0A0G2JUK9-1", "protein_xref_rgd", "1333556", "Olr465" ], [ "D3ZLV0-1", "protein_xref_rgd", "1333139", "Olr434" ], [ "Q07969-1", "protein_xref_rgd", "2301", "Cd36" ], [ "D3ZLV5-1", "protein_xref_rgd", "1308202", "Akna" ], [ "A0A096MJY8-1", "protein_xref_rgd", "1562948", "Acat2l1" ], [ "Q8VHI8-1", "protein_xref_rgd", "620799", "Bnip1" ], [ "D3ZLV9-1", "protein_xref_rgd", "1307166", "Klhl23" ], [ "A0A096MJY4-1", "protein_xref_rgd", "1563119", "Mef2c" ], [ "O88181-1", "protein_xref_rgd", "620726", "Barhl2" ], [ "A0A096MJY1-1", "protein_xref_rgd", "1593308", "Gpc6" ], [ "Q2KMM2-1", "protein_xref_rgd", "1311365", "Trappc1" ], [ "Q2KN99-1", "protein_xref_rgd", "1309570", "Specc1l" ], [ "A0A096MJY2-1", "protein_xref_rgd", "1311090", "Stoml3" ], [ "D4A838-1", "protein_xref_rgd", "1334072", "Olr318" ], [ "D4A838-1", "protein_xref_rgd", "1593675", "Olr1874" ], [ "Q5M808-1", "protein_xref_rgd", "1359455", "Hikeshi" ], [ "D3ZKU2-1", "protein_xref_rgd", "1334424", "Olr122" ], [ "O55043-1", "protein_xref_rgd", "620624", "Arhgef7" ], [ "A0A0G2K5R6-1", "protein_xref_rgd", "1560637", "Klrc3" ], [ "A0A0G2K5R6-1", "protein_xref_rgd", "2977", "Klrc2" ], [ "D4A830-1", "protein_xref_rgd", "1307965", "Ppa2" ], [ "D4A831-1", "protein_xref_rgd", "1309703", "Adgrb3" ], [ "D4A832-1", "protein_xref_rgd", "1312016", "Slc43a3" ], [ "D3ZZY5-1", "protein_xref_rgd", "1311792", "Pidd1" ], [ "D3ZZY5-1", "protein_xref_rgd", "6492303", "LOC100911519" ], [ "D4A834-1", "protein_xref_rgd", "1309904", "Prg3" ], [ "M0R6T1-1", "protein_xref_rgd", "1585145", "Tatdn1" ], [ "B0JYS4-1", "protein_xref_rgd", "1565431", "Mapk1ip1" ], [ "A0A0G2K5R4-1", "protein_xref_rgd", "1306287", "Zfc3h1" ], [ "O54783-1", "protein_xref_rgd", "61826", "Chkb" ], [ "Q6QI33-1", "protein_xref_rgd", "1588775", "LOC689713" ], [ "M0RCZ9-1", "protein_xref_rgd", "1559682", "Ppial4g" ], [ "M0RCZ7-1", "protein_xref_rgd", "1563818", "RGD1563818" ], [ "M0RCZ7-1", "protein_xref_rgd", "9161787", "LOC103690289" ], [ "M0RCZ2-1", "protein_xref_rgd", "6500406", "Gfy" ], [ "P01946-1", "protein_xref_rgd", "2782", "Hba1" ], [ "M0RCZ1-1", "protein_xref_rgd", "1334189", "Olr1297" ], [ "P56571-1", "protein_xref_rgd", "1303003", "RGD1303003" ], [ "P20646-1", "protein_xref_rgd", "2023", "Acpp" ], [ "P56574-1", "protein_xref_rgd", "1597139", "Idh2" ], [ "Q5BK10-1", "protein_xref_rgd", "1562682", "Capn13" ], [ "O35152-1", "protein_xref_rgd", "71051", "Bet1l" ], [ "P48965-1", "protein_xref_rgd", "621498", "Cdc25a" ], [ "M0R7U6-1", "protein_xref_rgd", "1595666", "Sowahc" ], [ "Q6P7Q1-1", "protein_xref_rgd", "735111", "Babam2" ], [ "P48966-1", "protein_xref_rgd", "621500", "Cdc25b" ], [ "P48961-1", "protein_xref_rgd", "2293", "Ccnd3" ] ] }, "readme": "Name\n - Rat UniProtKB Xref RGD\n\nVersion\n - 1.8.25\n\nCreated on\n - 2019-09-06T14:06:38.999441\n\nModified on\n - 2020-04-10T12:09:35.932688\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 [taxid:10116] UniprotKB Xref RefSeq contains rat UniProtKB canonical accessions cross-referenced to Rat Genome Database (RGD) accessions/identifiers. The dataset is derived from 2019-09 UniProtKB release. f you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen.\n - The Rat Genome Database (RGD) is the premier site for genetic, genomic, phenotype, and disease data generated from rat research\n\nDescription Domain\n Keywords\n - protein accessions\n - RefSeq\n - cross-reference\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB canonical accessions that are cross-referenced to Rat Genome 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/ln2wwwdata/source/uniprot-proteome-rattus-norvegicus.nt\n Name: rat_protein_masterlist.csv\n URI: https://data.glygen.org/ln2wwwdata/reviewed/rat_protein_masterlist.csv\n Output Subdomain\n Name: rat_protein_xref_rgd.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_xref_rgd.csv\n Name: rat_protein_xref_rgd.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_xref_rgd.stat.csv\n\nFields\n Name: \"src_xref_key\"\n Description: \"Source Xref key\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"119\"\n Name: \"title\"\n Description: \"Title of the published article in the journal\"\n Unique Values: \"119\"\n Name: \"src_xref_id\"\n Description: \"Source X-ref ID\"\n Unique Values: \"120\"\n Name: \"journal_name\"\n Description: \"The name of the journal in which the article is published\"\n Unique Values: \"49\"\n Name: \"authors\"\n Description: \"NA\"\n Unique Values: \"118\"\n Name: \"publication_date\"\n Description: \"Contains the full date on which the issue of the journal was published. Sourced from MEDLINE/PubMed data element(fields) description.\"\n Unique Values: \"117\"\n Name: \"glytoucan_ac\"\n Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n Unique Values: \"115\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-1.8.25/reviewed/rat_protein_xref_rgd.csv" }