{ "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": [ [ "D3ZB44-1...", "protein_xref..." ], [ "D3ZXJ3-1...", "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" } ], [ "D3ZB44-1", "protein_xref_rgd", "1306631", "Zfp324" ], [ "D3ZXJ3-1", "protein_xref_rgd", "1586242", "Zfp78" ], [ "D3ZB49-1", "protein_xref_rgd", "1306323", "Osgin2" ], [ "D3ZB48-1", "protein_xref_rgd", "1309987", "Hook1" ], [ "Q5RJZ1-1", "protein_xref_rgd", "1306721", "Rtel1" ], [ "Q04462-1", "protein_xref_rgd", "3950", "Vars" ], [ "Q04462-1", "protein_xref_rgd", "3950", "Vars1" ], [ "Q0HA29-1", "protein_xref_rgd", "1307331", "Nmnat2" ], [ "A0A0G2JVG5-1", "protein_xref_rgd", "7572423", "LOC102552378" ], [ "P30938-1", "protein_xref_rgd", "3765", "Sstr5" ], [ "A0A0G2JVG8-1", "protein_xref_rgd", "1333914", "Olr410" ], [ "Q99372-1", "protein_xref_rgd", "67394", "Eln" ], [ "Q07969-1", "protein_xref_rgd", "2301", "Cd36" ], [ "A0A096MJY8-1", "protein_xref_rgd", "1562948", "Acat2l1" ], [ "Q9QYG8-1", "protein_xref_rgd", "620742", "Uck2" ], [ "A0A096MJY4-1", "protein_xref_rgd", "1563119", "Mef2c" ], [ "B2GV58-1", "protein_xref_rgd", "1305695", "Lsm14a" ], [ "A0A096MJY1-1", "protein_xref_rgd", "1593308", "Gpc6" ], [ "A0A0G2KA92-1", "protein_xref_rgd", "1310056", "Chd2" ], [ "P56558-1", "protein_xref_rgd", "62060", "Ogt" ], [ "A0A096MJY2-1", "protein_xref_rgd", "1311090", "Stoml3" ], [ "A0A0G2K4P4-1", "protein_xref_rgd", "1560978", "Bbof1" ], [ "Q5RJK6-1", "protein_xref_rgd", "1306071", "Inpp1" ], [ "Q62949-1", "protein_xref_rgd", "2383", "Cort" ], [ "P01946-1", "protein_xref_rgd", "2782", "Hba1" ], [ "Q63358-1", "protein_xref_rgd", "3146", "Myo9b" ], [ "Q5M9G9-1", "protein_xref_rgd", "1309737", "Tbrg4" ], [ "O35152-1", "protein_xref_rgd", "71051", "Bet1l" ], [ "A0A1W2Q6N1-1", "protein_xref_rgd", "1311069", "Mpl" ], [ "P30936-1", "protein_xref_rgd", "620308", "Sstr3" ], [ "O35158-1", "protein_xref_rgd", "708433", "Cdon" ], [ "P02761-1", "protein_xref_rgd", "708506", "LOC259246" ], [ "Q9QYH1-1", "protein_xref_rgd", "620016", "Mpp4" ], [ "P02764-1", "protein_xref_rgd", "67390", "Orm1" ], [ "P02767-1", "protein_xref_rgd", "3916", "Ttr" ], [ "D4A4W8-1", "protein_xref_rgd", "1310141", "Tbxt" ], [ "D4A4W0-1", "protein_xref_rgd", "1334154", "Olr338" ], [ "D4A4W1-1", "protein_xref_rgd", "1596692", "Fam174b" ], [ "D4A4W2-1", "protein_xref_rgd", "1562382", "Slc47a2" ], [ "F7EN52-1", "protein_xref_rgd", "1306605", "Cyp46a1" ], [ "D4A4W4-1", "protein_xref_rgd", "1307206", "Ephx3" ], [ "D4A4W5-1", "protein_xref_rgd", "1565126", "Atp10b" ], [ "D4A4W6-1", "protein_xref_rgd", "1585290", "Slirp" ], [ "D4A4W7-1", "protein_xref_rgd", "1586369", "Mgarp" ], [ "G3V6I3-1", "protein_xref_rgd", "1305258", "Cwc25" ], [ "P21932-1", "protein_xref_rgd", "71009", "Adcy3" ], [ "Q8K4K5-1", "protein_xref_rgd", "3012", "Llgl1" ], [ "Q4L0E8-1", "protein_xref_rgd", "1306522", "Rgs18" ], [ "G3V6I6-1", "protein_xref_rgd", "1303151", "Adipor1" ], [ "A0A0G2K5E4-1", "protein_xref_rgd", "1306527", "Dnaja3" ], [ "G3V6I4-1", "protein_xref_rgd", "1592219", "Marc1" ], [ "P12749-1", "protein_xref_rgd", "1310607", "Rpl26" ], [ "O08812-1", "protein_xref_rgd", "68342", "Slc7a3" ], [ "P39020-1", "protein_xref_rgd", "3079", "Meox2" ], [ "P11980-1", "protein_xref_rgd", "3337", "Pkm" ], [ "A0A0G2K0T8-1", "protein_xref_rgd", "1584388", "Fam25a" ], [ "Q6P6Q9-1", "protein_xref_rgd", "735033", "Micu1" ], [ "Q63544-1", "protein_xref_rgd", "70996", "Sncg" ], [ "A0A0G2K0T7-1", "protein_xref_rgd", "1312031", "Zfp35" ], [ "P28648-1", "protein_xref_rgd", "62080", "Cd63" ], [ "Q5U1W2-1", "protein_xref_rgd", "1307129", "Prr13" ], [ "D3ZVR6-1", "protein_xref_rgd", "1304857", "Slf1" ], [ "A0A0G2K1A1-1", "protein_xref_rgd", "1563959", "Zfp706" ], [ "P01237-1", "protein_xref_rgd", "3403", "Prl" ], [ "P33124-1", "protein_xref_rgd", "69403", "Acsl6" ], [ "P01230-1", "protein_xref_rgd", "3006", "Lhb" ], [ "Q6MG12-1", "protein_xref_rgd", "1302996", "RGD1302996" ], [ "M0RB72-1", "protein_xref_rgd", "1592397", "Prr15l" ], [ "P09006-1", "protein_xref_rgd", "3747", "Serpina3n" ], [ "D4A781-1", "protein_xref_rgd", "1308715", "Ipo5" ], [ "M0RB75-1", "protein_xref_rgd", "1588576", "Kdm4b" ], [ "A0A0G2K8D0-1", "protein_xref_rgd", "1559482", "RGD1559482" ], [ "Q9JHY8-1", "protein_xref_rgd", "621424", "Lig1" ], [ "Q9JHY1-1", "protein_xref_rgd", "621842", "F11r" ], [ "Q9JHY2-1", "protein_xref_rgd", "620716", "Sfxn3" ], [ "Q9JHY7-1", "protein_xref_rgd", "70499", "Birc5" ], [ "P33568-1", "protein_xref_rgd", "3540", "Rb1" ], [ "P31646-1", "protein_xref_rgd", "620788", "Slc6a13" ], [ "E9PU34-1", "protein_xref_rgd", "1309546", "Rmnd1" ], [ "Q02874-1", "protein_xref_rgd", "621462", "Macroh2a1" ], [ "P08699-1", "protein_xref_rgd", "69356", "Lgals3" ], [ "P56558-1", "protein_xref_rgd", "62060", "Ogt" ], [ "P08011-1", "protein_xref_rgd", "70927", "Mgst1" ], [ "Q8CJ58-1", "protein_xref_rgd", "628779", "Clrn1" ] ] }, "readme": "Name\n - Rat UniProtKB Xref RGD\n\nVersion\n - 1.11.2\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], Karina Martinez [karinamartinez@gwu.edu], Amanda Bell [amandab2140@gwu.edu], Jonathon Keeney [keeneyjg@gwu.edu], Millicent Quartey [mquartey@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/ln2downloads/ebi/2021_04/uniprot-proteome-rattus-norvegicus.nt\n Output Subdomain\n Name: rat_protein_xref_rgd.csv\n URI: https:/data.glygen.org/ln2releases/data/v-1.12.3/reviewed/rat_protein_xref_rgd.csv\n Name: rat_protein_xref_rgd.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-1.12.3/reviewed/rat_protein_xref_rgd.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"19433\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"20092\"\n Name: \"xref_label\"\n Description: \"Label/Name associated with x-ref\"\n Unique Values: \"20158\"", "downloadurl": "/ln2data/releases/data/v-1.12.3/reviewed/rat_protein_xref_rgd.csv" }