{ "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" ], "tag": [ "Orthodb cross-references" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "Q5RJZ1-1...", "protein_xref..." ], [ "Q0HA29-1...", "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" } ], [ "Q5RJZ1-1", "protein_xref_orthodb", "124793at2759", "" ], [ "Q0HA29-1", "protein_xref_orthodb", "5488885at2759", "" ], [ "P30937-1", "protein_xref_orthodb", "5393360at2759", "" ], [ "O35152-1", "protein_xref_orthodb", "5355409at2759", "" ], [ "P30936-1", "protein_xref_orthodb", "5393360at2759", "" ], [ "O35158-1", "protein_xref_orthodb", "3138076at2759", "" ], [ "P02761-1", "protein_xref_orthodb", "4635611at2759", "" ], [ "P02764-1", "protein_xref_orthodb", "4563010at2759", "" ], [ "P02767-1", "protein_xref_orthodb", "5352684at2759", "" ], [ "D4A4W8-1", "protein_xref_orthodb", "5323209at2759", "" ], [ "D4A4W0-1", "protein_xref_orthodb", "5401587at2759", "" ], [ "D4A4W1-1", "protein_xref_orthodb", "5362824at2759", "" ], [ "F7EN52-1", "protein_xref_orthodb", "1611592at2759", "" ], [ "D4A4W4-1", "protein_xref_orthodb", "2443908at2759", "" ], [ "D4A4W5-1", "protein_xref_orthodb", "275833at2759", "" ], [ "D4A4W6-1", "protein_xref_orthodb", "1354311at2759", "" ], [ "D4A4W7-1", "protein_xref_orthodb", "5361076at2759", "" ], [ "P01237-1", "protein_xref_orthodb", "4765458at2759", "" ], [ "P01230-1", "protein_xref_orthodb", "2945053at2759", "" ], [ "P09006-1", "protein_xref_orthodb", "3218836at2759", "" ], [ "Q9JHY1-1", "protein_xref_orthodb", "5401670at2759", "" ], [ "Q9JHY2-1", "protein_xref_orthodb", "48449at2759", "" ], [ "Q9JHY7-1", "protein_xref_orthodb", "2882335at2759", "" ], [ "Q9WU49-1", "protein_xref_orthodb", "218650at2759", "" ], [ "P83748-1", "protein_xref_orthodb", "4629979at2759", "" ], [ "P18508-1", "protein_xref_orthodb", "4265336at2759", "" ], [ "P04757-1", "protein_xref_orthodb", "5489962at2759", "" ], [ "Q9R1N3-1", "protein_xref_orthodb", "1013180at2759", "" ], [ "D3ZIY3-1", "protein_xref_orthodb", "352358at2759", "" ], [ "A0A8I6GKG1-1", "protein_xref_orthodb", "5113494at2759", "" ], [ "D3ZFP5-1", "protein_xref_orthodb", "4848787at2759", "" ], [ "D3ZFP4-1", "protein_xref_orthodb", "5476523at2759", "" ], [ "D3ZFP7-1", "protein_xref_orthodb", "4187221at2759", "" ], [ "D3ZFP6-1", "protein_xref_orthodb", "3087582at2759", "" ], [ "D4A131-1", "protein_xref_orthodb", "2873891at2759", "" ], [ "A0A1W2Q641-1", "protein_xref_orthodb", "5473187at2759", "" ], [ "P09875-1", "protein_xref_orthodb", "382054at2759", "" ], [ "D4A138-1", "protein_xref_orthodb", "5360339at2759", "" ], [ "F1LWI8-1", "protein_xref_orthodb", "5477394at2759", "" ], [ "D3ZCS5-1", "protein_xref_orthodb", "3088721at2759", "" ], [ "D3ZCS4-1", "protein_xref_orthodb", "12619at2759", "" ], [ "D3ZCS6-1", "protein_xref_orthodb", "3682573at2759", "" ], [ "D3ZCS1-1", "protein_xref_orthodb", "22856at2759", "" ], [ "D3ZCS3-1", "protein_xref_orthodb", "378620at2759", "" ], [ "A0A3B0J1M6-1", "protein_xref_orthodb", "3013859at2759", "" ], [ "D3ZCS9-1", "protein_xref_orthodb", "324942at2759", "" ], [ "A0A0G2KAH3-1", "protein_xref_orthodb", "5323209at2759", "" ], [ "A0A8I6ACL3-1", "protein_xref_orthodb", "5356014at2759", "" ], [ "D3ZUF1-1", "protein_xref_orthodb", "4116921at2759", "" ], [ "Q9JIL3-1", "protein_xref_orthodb", "4565640at2759", "" ], [ "A0A8I6A636-1", "protein_xref_orthodb", "2897675at2759", "" ], [ "Q6P5P5-1", "protein_xref_orthodb", "907220at2759", "" ], [ "A0A0G2JVP1-1", "protein_xref_orthodb", "4064676at2759", "" ], [ "Q6P5P3-1", "protein_xref_orthodb", "1083789at2759", "" ], [ "D3ZXJ0-1", "protein_xref_orthodb", "2225278at2759", "" ], [ "A0A8I5ZXW0-1", "protein_xref_orthodb", "1330422at2759", "" ], [ "D3ZXJ5-1", "protein_xref_orthodb", "166721at2759", "" ], [ "A0A0G2JVZ2-1", "protein_xref_orthodb", "380905at2759", "" ], [ "A0A0G2JVZ7-1", "protein_xref_orthodb", "5354696at2759", "" ], [ "Q9QYH7-1", "protein_xref_orthodb", "5312349at2759", "" ], [ "Q67ER9-1", "protein_xref_orthodb", "4189279at2759", "" ], [ "D3ZT68-1", "protein_xref_orthodb", "3641706at2759", "" ], [ "Q9EPW1-1", "protein_xref_orthodb", "2872674at2759", "" ], [ "D3ZT64-1", "protein_xref_orthodb", "5476854at2759", "" ], [ "D3ZT66-1", "protein_xref_orthodb", "3784606at2759", "" ], [ "D4AE80-1", "protein_xref_orthodb", "385293at2759", "" ], [ "D4AE81-1", "protein_xref_orthodb", "5400510at2759", "" ], [ "D4AE82-1", "protein_xref_orthodb", "2882240at2759", "" ], [ "D4AE85-1", "protein_xref_orthodb", "76535at2759", "" ], [ "A0A0G2K8J8-1", "protein_xref_orthodb", "20093at2759", "" ], [ "P97613-1", "protein_xref_orthodb", "4105310at2759", "" ], [ "P43219-1", "protein_xref_orthodb", "4209404at2759", "" ], [ "Q9ESR9-1", "protein_xref_orthodb", "6951at2759", "" ], [ "P97615-1", "protein_xref_orthodb", "45858at2759", "" ], [ "Q1M168-1", "protein_xref_orthodb", "5402707at2759", "" ], [ "Q60I18-1", "protein_xref_orthodb", "4817057at2759", "" ], [ "B3EY83-1", "protein_xref_orthodb", "5319720at2759", "" ], [ "P37089-1", "protein_xref_orthodb", "5344287at2759", "" ], [ "Q00972-1", "protein_xref_orthodb", "3058550at2759", "" ], [ "M0R659-1", "protein_xref_orthodb", "4631413at2759", "" ], [ "D3ZH36-1", "protein_xref_orthodb", "4176548at2759", "" ], [ "Q9ESN0-1", "protein_xref_orthodb", "5482508at2759", "" ], [ "Q5BK30-1", "protein_xref_orthodb", "989707at2759", "" ], [ "Q5BK32-1", "protein_xref_orthodb", "8912at2759", "" ] ] }, "readme": "Name\n - Rat UniProtKB Xref OrthoDB\n\nVersion\n - v-2.2.1\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], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Jingyue Wu [jingyue.wu@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: https:/data.glygen.org/ln2downloads/ebi/2023_10_30/uniprot-proteome-rattus-norvegicus.nt\n Output Subdomain\n Name: rat_protein_xref_orthodb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_protein_xref_orthodb.csv\n Name: rat_protein_xref_orthodb.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_protein_xref_orthodb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"15695\"\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: \"8786\"\n Name: \"xref_label\"\n Description: \"Label/Name associated with x-ref\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-2.2.1/reviewed/rat_protein_xref_orthodb.csv" }