{ "bcoid": "GLY_000257", "title": "Rat UniProtKB Xref OrthoDB", "description": "The Rat UniProtKB Xref OrthoDB contains rat [taxid:10116] UniProtKB canonical accessions cross-referenced ...", "filename": "rat_protein_xref_orthodb.csv", "filetype": "csv", "categories": { "species": "Rattus norvegicus", "molecule": "Protein", "tags": "Orthodb cross-references", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q0HA29-1...", "protein_xref..." ], [ "A0A8I6B3C5-1...", "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" } ], [ "Q0HA29-1", "protein_xref_orthodb", "1308027at2759", "" ], [ "A0A8I6B3C5-1", "protein_xref_orthodb", "1251727at2759", "" ], [ "P30937-1", "protein_xref_orthodb", "1011272at2759", "" ], [ "O35152-1", "protein_xref_orthodb", "1536545at2759", "" ], [ "P30936-1", "protein_xref_orthodb", "1011272at2759", "" ], [ "F7FI04-1", "protein_xref_orthodb", "1407986at2759", "" ], [ "P02764-1", "protein_xref_orthodb", "1257041at2759", "" ], [ "P02767-1", "protein_xref_orthodb", "1453185at2759", "" ], [ "D4A4W8-1", "protein_xref_orthodb", "1201455at2759", "" ], [ "D4A4W1-1", "protein_xref_orthodb", "1612806at2759", "" ], [ "F7EN52-1", "protein_xref_orthodb", "825914at2759", "" ], [ "D4A4W4-1", "protein_xref_orthodb", "616687at2759", "" ], [ "D4A4W5-1", "protein_xref_orthodb", "587717at2759", "" ], [ "D4A4W6-1", "protein_xref_orthodb", "1587548at2759", "" ], [ "D4A4W7-1", "protein_xref_orthodb", "1441982at2759", "" ], [ "P01237-1", "protein_xref_orthodb", "1290070at2759", "" ], [ "P01230-1", "protein_xref_orthodb", "1060061at2759", "" ], [ "P09006-1", "protein_xref_orthodb", "1124079at2759", "" ], [ "Q9JHY1-1", "protein_xref_orthodb", "1122085at2759", "" ], [ "Q9JHY2-1", "protein_xref_orthodb", "881974at2759", "" ], [ "Q9JHY7-1", "protein_xref_orthodb", "1404665at2759", "" ], [ "Q9WU49-1", "protein_xref_orthodb", "1560417at2759", "" ], [ "F7FHL6-1", "protein_xref_orthodb", "1392223at2759", "" ], [ "P18508-1", "protein_xref_orthodb", "1057372at2759", "" ], [ "P04757-1", "protein_xref_orthodb", "381858at2759", "" ], [ "Q9R1N3-1", "protein_xref_orthodb", "265068at2759", "" ], [ "D3ZIY3-1", "protein_xref_orthodb", "1523251at2759", "" ], [ "A0A8I6A6H3-1", "protein_xref_orthodb", "1318335at2759", "" ], [ "D3ZFP5-1", "protein_xref_orthodb", "1485195at2759", "" ], [ "D3ZFP4-1", "protein_xref_orthodb", "266497at2759", "" ], [ "D3ZFP7-1", "protein_xref_orthodb", "569133at2759", "" ], [ "D3ZFP6-1", "protein_xref_orthodb", "150355at2759", "" ], [ "D4A131-1", "protein_xref_orthodb", "1592747at2759", "" ], [ "D4A133-1", "protein_xref_orthodb", "241249at2759", "" ], [ "P09875-1", "protein_xref_orthodb", "508327at2759", "" ], [ "D4A138-1", "protein_xref_orthodb", "1198436at2759", "" ], [ "D3ZCS5-1", "protein_xref_orthodb", "1595761at2759", "" ], [ "D3ZCS4-1", "protein_xref_orthodb", "674320at2759", "" ], [ "D3ZCS6-1", "protein_xref_orthodb", "524642at2759", "" ], [ "D3ZCS1-1", "protein_xref_orthodb", "1416350at2759", "" ], [ "D3ZCS3-1", "protein_xref_orthodb", "954970at2759", "" ], [ "A0A3B0J1M6-1", "protein_xref_orthodb", "1258047at2759", "" ], [ "D3ZCS9-1", "protein_xref_orthodb", "1453185at2759", "" ], [ "D3ZUF1-1", "protein_xref_orthodb", "1296179at2759", "" ], [ "Q9JIL3-1", "protein_xref_orthodb", "612611at2759", "" ], [ "Q6P5P4-1", "protein_xref_orthodb", "1047475at2759", "" ], [ "Q6P5P5-1", "protein_xref_orthodb", "1268438at2759", "" ], [ "Q6P5P3-1", "protein_xref_orthodb", "1535136at2759", "" ], [ "D3ZXJ0-1", "protein_xref_orthodb", "1075463at2759", "" ], [ "D3ZXJ5-1", "protein_xref_orthodb", "140796at2759", "" ], [ "P14669-1", "protein_xref_orthodb", "856254at2759", "" ], [ "A0A0G2JVZ2-1", "protein_xref_orthodb", "1391465at2759", "" ], [ "A0A0G2JVZ7-1", "protein_xref_orthodb", "89929at2759", "" ], [ "Q9QYH7-1", "protein_xref_orthodb", "1600403at2759", "" ], [ "Q67ER9-1", "protein_xref_orthodb", "1010573at2759", "" ], [ "D3ZT68-1", "protein_xref_orthodb", "817293at2759", "" ], [ "Q9EPW1-1", "protein_xref_orthodb", "331262at2759", "" ], [ "D3ZT66-1", "protein_xref_orthodb", "909874at2759", "" ], [ "D4AE80-1", "protein_xref_orthodb", "1509316at2759", "" ], [ "D4AE81-1", "protein_xref_orthodb", "147068at2759", "" ], [ "D4AE82-1", "protein_xref_orthodb", "1388955at2759", "" ], [ "D4AE85-1", "protein_xref_orthodb", "908291at2759", "" ], [ "A0A0G2K8J8-1", "protein_xref_orthodb", "203269at2759", "" ], [ "P43219-1", "protein_xref_orthodb", "651627at2759", "" ], [ "Q9ESR9-1", "protein_xref_orthodb", "131191at2759", "" ], [ "D3ZPI2-1", "protein_xref_orthodb", "1154868at2759", "" ], [ "Q1M168-1", "protein_xref_orthodb", "755773at2759", "" ], [ "Q60I18-1", "protein_xref_orthodb", "912212at2759", "" ], [ "P37089-1", "protein_xref_orthodb", "686369at2759", "" ], [ "Q00972-1", "protein_xref_orthodb", "1242599at2759", "" ], [ "A0A8I5ZWP4-1", "protein_xref_orthodb", "1075792at2759", "" ], [ "M0R659-1", "protein_xref_orthodb", "883388at2759", "" ], [ "D3ZH36-1", "protein_xref_orthodb", "190870at2759", "" ], [ "Q9ESN0-1", "protein_xref_orthodb", "164866at2759", "" ], [ "Q5BK30-1", "protein_xref_orthodb", "872177at2759", "" ], [ "Q5BK36-1", "protein_xref_orthodb", "1096692at2759", "" ], [ "Q5BK38-1", "protein_xref_orthodb", "1271265at2759", "" ], [ "Q5BK39-1", "protein_xref_orthodb", "1417661at2759", "" ], [ "A0A0G2K2H4-1", "protein_xref_orthodb", "1019877at2759", "" ], [ "P31016-1", "protein_xref_orthodb", "836427at2759", "" ], [ "A0A8I5ZJD4-1", "protein_xref_orthodb", "592023at2759", "" ], [ "O88302-1", "protein_xref_orthodb", "754573at2759", "" ], [ "A0A8I5Y5E0-1", "protein_xref_orthodb", "1519192at2759", "" ], [ "A0A0G2JV12-1", "protein_xref_orthodb", "1362001at2759", "" ] ] }, "readme": "Name\n - Rat UniProtKB Xref OrthoDB\n\nVersion\n - v-2.0.3\n\nCreated on\n - 2019-09-06T14:06:38.984081\n\nModified on\n - 2022-09-26T09:04:47.971474\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 UniProtKB Xref OrthoDB contains rat [taxid:10116] UniProtKB canonical accessions cross-referenced to OrthoDB database accessions/identifiers. The dataset is derived from 2019-09 UniProtKB release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen. \n - OrthoDB is a comprehensive catalog of orthologs, i.e. descendants from a single gene of the last common ancestor of a specific phylogeny radiation termed level-of-orthology. \n\nDescription Domain\n Keywords\n - orthologs\n - OrthoDB\n - cross-reference\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB canonical accessions that are cross-referenced to OrthoDB 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/glygener/glygen-backend-integration/blob/master/dataset-maker/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: /data/shared/glyds/downloads/ebi/2022_05/uniprot-proteome-rattus-norvegicus.nt\n Output Subdomain\n Name: rat_protein_xref_orthodb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.0.3/reviewed/rat_protein_xref_orthodb.csv\n Name: rat_protein_xref_orthodb.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.0.3/reviewed/rat_protein_xref_orthodb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"15805\"\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: \"9096\"\n Name: \"xref_label\"\n Description: \"Label/Name associated with x-ref\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-2.0.3/reviewed/rat_protein_xref_orthodb.csv" }