{ "bcoid": "GLY_000115", "title": "Human UniProtKB Xref OrthoDB", "description": "The Human UniProtKB Xref OrthoDB contains human [taxid:9606] UniProtKB canonical accessions cross-referenced ...", "filename": "human_protein_xref_orthodb.csv", "filetype": "csv", "categories": { "species": "Homo sapiens", "molecule": "Protein", "tags": "Orthodb cross-references", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "P30613-1...", "protein_xref..." ], [ "Q96J65-1...", "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" } ], [ "P30613-1", "protein_xref_orthodb", "933620at2759", "" ], [ "Q96J65-1", "protein_xref_orthodb", "138195at2759", "" ], [ "Q8NC06-1", "protein_xref_orthodb", "1546859at2759", "" ], [ "Q8NBW4-1", "protein_xref_orthodb", "941044at2759", "" ], [ "P40424-1", "protein_xref_orthodb", "804740at2759", "" ], [ "P40425-1", "protein_xref_orthodb", "804740at2759", "" ], [ "P40429-1", "protein_xref_orthodb", "1312756at2759", "" ], [ "Q9H2I8-1", "protein_xref_orthodb", "1133053at2759", "" ], [ "H0YL14-1", "protein_xref_orthodb", "1491213at2759", "" ], [ "Q5VVP1-1", "protein_xref_orthodb", "1095565at2759", "" ], [ "Q8N865-1", "protein_xref_orthodb", "1113879at2759", "" ], [ "A6NIR3-1", "protein_xref_orthodb", "751525at2759", "" ], [ "Q86VY4-1", "protein_xref_orthodb", "1191764at2759", "" ], [ "Q86VY9-1", "protein_xref_orthodb", "564629at2759", "" ], [ "P19075-1", "protein_xref_orthodb", "1205716at2759", "" ], [ "Q99519-1", "protein_xref_orthodb", "652179at2759", "" ], [ "O15417-1", "protein_xref_orthodb", "11077at2759", "" ], [ "Q96RU3-1", "protein_xref_orthodb", "348563at2759", "" ], [ "Q96RU2-1", "protein_xref_orthodb", "194025at2759", "" ], [ "Q96RU8-1", "protein_xref_orthodb", "1362510at2759", "" ], [ "Q6ZRV2-1", "protein_xref_orthodb", "84242at2759", "" ], [ "P16520-1", "protein_xref_orthodb", "704786at2759", "" ], [ "Q8NCJ5-1", "protein_xref_orthodb", "1106989at2759", "" ], [ "Q9Y296-1", "protein_xref_orthodb", "1504863at2759", "" ], [ "Q9Y297-1", "protein_xref_orthodb", "666965at2759", "" ], [ "Q9Y295-1", "protein_xref_orthodb", "754662at2759", "" ], [ "Q6ICB4-1", "protein_xref_orthodb", "1329965at2759", "" ], [ "Q6ICB0-1", "protein_xref_orthodb", "1214552at2759", "" ], [ "O00507-1", "protein_xref_orthodb", "625455at2759", "" ], [ "O00505-1", "protein_xref_orthodb", "1111872at2759", "" ], [ "Q8IYD2-1", "protein_xref_orthodb", "1562595at2759", "" ], [ "Q8IYD1-1", "protein_xref_orthodb", "1150082at2759", "" ], [ "Q8IYD9-1", "protein_xref_orthodb", "597657at2759", "" ], [ "Q8IYD8-1", "protein_xref_orthodb", "989616at2759", "" ], [ "Q8IVD9-1", "protein_xref_orthodb", "1489576at2759", "" ], [ "Q9Y343-1", "protein_xref_orthodb", "1305786at2759", "" ], [ "P24903-1", "protein_xref_orthodb", "702827at2759", "" ], [ "Q8N7C0-1", "protein_xref_orthodb", "826997at2759", "" ], [ "O00560-1", "protein_xref_orthodb", "1035679at2759", "" ], [ "Q9UPQ0-1", "protein_xref_orthodb", "298177at2759", "" ], [ "Q9NV23-1", "protein_xref_orthodb", "1324961at2759", "" ], [ "Q9NV29-1", "protein_xref_orthodb", "1598239at2759", "" ], [ "Q9UQ26-6", "protein_xref_orthodb", "109268at2759", "" ], [ "P0C7I6-2", "protein_xref_orthodb", "1360515at2759", "" ], [ "P0C7I0-1", "protein_xref_orthodb", "561804at2759", "" ], [ "Q5HYW2-1", "protein_xref_orthodb", "82879at2759", "" ], [ "Q5HYW3-1", "protein_xref_orthodb", "82879at2759", "" ], [ "Q9Y5J9-1", "protein_xref_orthodb", "1593287at2759", "" ], [ "P45984-1", "protein_xref_orthodb", "741207at2759", "" ], [ "Q969H0-1", "protein_xref_orthodb", "927943at2759", "" ], [ "Q7Z5G4-1", "protein_xref_orthodb", "1528169at2759", "" ], [ "Q9Y5J6-1", "protein_xref_orthodb", "1627953at2759", "" ], [ "P27469-1", "protein_xref_orthodb", "1486241at2759", "" ], [ "Q9UEF7-1", "protein_xref_orthodb", "408001at2759", "" ], [ "Q9H239-1", "protein_xref_orthodb", "1075463at2759", "" ], [ "Q9H237-1", "protein_xref_orthodb", "975725at2759", "" ], [ "Q8NEQ5-1", "protein_xref_orthodb", "1580985at2759", "" ], [ "Q8NEQ6-1", "protein_xref_orthodb", "1598773at2759", "" ], [ "O75078-1", "protein_xref_orthodb", "162519at2759", "" ], [ "P35052-1", "protein_xref_orthodb", "611422at2759", "" ], [ "Q9H7J1-1", "protein_xref_orthodb", "1232750at2759", "" ], [ "O60830-1", "protein_xref_orthodb", "1590221at2759", "" ], [ "O60831-1", "protein_xref_orthodb", "1288023at2759", "" ], [ "O60832-1", "protein_xref_orthodb", "1070373at2759", "" ], [ "O14579-1", "protein_xref_orthodb", "303947at2759", "" ], [ "Q7LDG7-1", "protein_xref_orthodb", "355412at2759", "" ], [ "Q8N587-1", "protein_xref_orthodb", "1318335at2759", "" ], [ "P17900-1", "protein_xref_orthodb", "1548356at2759", "" ], [ "P57723-1", "protein_xref_orthodb", "954970at2759", "" ], [ "Q9NPI8-1", "protein_xref_orthodb", "1404593at2759", "" ], [ "Q9NPI5-1", "protein_xref_orthodb", "1230625at2759", "" ], [ "Q9NPI7-1", "protein_xref_orthodb", "1288916at2759", "" ], [ "Q9NPI6-1", "protein_xref_orthodb", "1509316at2759", "" ], [ "Q9NPI1-1", "protein_xref_orthodb", "439339at2759", "" ], [ "Q9NPI0-1", "protein_xref_orthodb", "1480637at2759", "" ], [ "Q05397-1", "protein_xref_orthodb", "43729at2759", "" ], [ "Q96LT9-1", "protein_xref_orthodb", "1080666at2759", "" ], [ "Q96LT6-1", "protein_xref_orthodb", "1509113at2759", "" ], [ "Q96LT7-1", "protein_xref_orthodb", "1434762at2759", "" ], [ "Q96LT4-1", "protein_xref_orthodb", "1576308at2759", "" ], [ "Q6ZTR7-1", "protein_xref_orthodb", "1324464at2759", "" ], [ "A6NLE4-1", "protein_xref_orthodb", "1592023at2759", "" ], [ "P62280-1", "protein_xref_orthodb", "1325168at2759", "" ], [ "Q10571-1", "protein_xref_orthodb", "923694at2759", "" ] ] }, "readme": "Name\n - Human UniProtKB Xref OrthoDB\n\nVersion\n - 1.11.2\n\nCreated on\n - 2019-03-15T14:55:58.596936\n\nModified on\n - 2022-01-19T10:43:02.461556\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 Human UniProtKB Xref OrthoDB contains human [taxid:9606] 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/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-homo-sapiens.nt\n URI: https:/data.glygen.org/ln2downloads/ebi/2021_04/uniprot-proteome-homo-sapiens.nt\n Output Subdomain\n Name: human_protein_xref_orthodb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-1.12.3/reviewed/human_protein_xref_orthodb.csv\n Name: human_protein_xref_orthodb.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-1.12.3/reviewed/human_protein_xref_orthodb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"16835\"\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: \"9366\"\n Name: \"xref_label\"\n Description: \"Label/Name associated with x-ref\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-1.12.3/reviewed/human_protein_xref_orthodb.csv" }