{ "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": [ [ "Q5RJK9-1...", "834009at2759..." ], [ "Q5RJK8-1...", "1575996at275..." ] ], "headers": [ "uniprotkb_ca...", "database_id..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "database_id" }, { "type": "string", "label": "database_label" } ], [ "Q5RJK9-1", "834009at2759", "" ], [ "Q5RJK8-1", "1575996at2759", "" ], [ "D3ZB44-1", "1318335at2759", "" ], [ "Q5RJK0-1", "1175832at2759", "" ], [ "Q5RJK3-1", "1396299at2759", "" ], [ "Q5RJK5-1", "1628171at2759", "" ], [ "D3ZB48-1", "398210at2759", "" ], [ "Q5RJK6-1", "1096950at2759", "" ], [ "Q6MG55-1", "580247at2759", "" ], [ "Q6MG56-1", "945228at2759", "" ], [ "A0A0G2K0H3-1", "121310at2759", "" ], [ "Q5XIH0-1", "939345at2759", "" ], [ "Q6MG51-1", "1410459at2759", "" ], [ "F1M2W7-1", "1528782at2759", "" ], [ "Q6MG53-1", "1299275at2759", "" ], [ "D4AAV0-1", "648909at2759", "" ], [ "P20961-1", "1024816at2759", "" ], [ "Q6MG59-1", "1224317at2759", "" ], [ "Q4KLP0-1", "134699at2759", "" ], [ "M0RAP6-1", "57214at2759", "" ], [ "M0RAP5-1", "45015at2759", "" ], [ "A0A0G2JVG8-1", "1126809at2759", "" ], [ "F1M1W4-1", "1495850at2759", "" ], [ "P34997-1", "794531at2759", "" ], [ "Q9WUD9-1", "539311at2759", "" ], [ "Q8R553-1", "302557at2759", "" ], [ "Q925Q4-1", "1435006at2759", "" ], [ "Q9QX69-1", "681208at2759", "" ], [ "P30348-1", "1617719at2759", "" ], [ "Q9WUD2-1", "693004at2759", "" ], [ "A0A0G2JUK9-1", "985667at2759", "" ], [ "D3ZLV0-1", "1130066at2759", "" ], [ "D3ZLV5-1", "112521at2759", "" ], [ "Q8VHI8-1", "1328108at2759", "" ], [ "D3ZLV9-1", "400213at2759", "" ], [ "A0A096MJY4-1", "729387at2759", "" ], [ "O88181-1", "1353352at2759", "" ], [ "A0A096MJY1-1", "611422at2759", "" ], [ "Q2KMM2-1", "1431711at2759", "" ], [ "Q2KN99-1", "854083at2759", "" ], [ "D4A838-1", "984246at2759", "" ], [ "Q5M808-1", "1223488at2759", "" ], [ "D3ZKU2-1", "1088732at2759", "" ], [ "O55043-1", "547556at2759", "" ], [ "D4A831-1", "27621at2759", "" ], [ "D4A832-1", "639867at2759", "" ], [ "D3ZZY5-1", "176487at2759", "" ], [ "D4A834-1", "1328472at2759", "" ], [ "B0JYS4-1", "1455063at2759", "" ], [ "O54783-1", "1469912at2759", "" ], [ "Q6QI33-1", "313313at32523", "" ], [ "M0RCZ7-1", "979841at2759", "" ], [ "M0RCZ2-1", "795288at2759", "" ], [ "P01946-1", "1398217at2759", "" ], [ "M0RCZ1-1", "304933at7742", "" ], [ "P56571-1", "1204104at2759", "" ], [ "P20646-1", "1221585at2759", "" ], [ "P56574-1", "769322at2759", "" ], [ "Q5BK10-1", "704215at2759", "" ], [ "O35152-1", "1536545at2759", "" ], [ "P48965-1", "1423329at2759", "" ], [ "M0R7U6-1", "1531345at2759", "" ], [ "Q6P7Q1-1", "831092at2759", "" ], [ "P48966-1", "1423329at2759", "" ], [ "P48961-1", "1234739at2759", "" ], [ "O35158-1", "102649at2759", "" ], [ "M0R7U1-1", "1378291at2759", "" ], [ "Q6P7Q4-1", "1513831at2759", "" ], [ "F1M4Y5-1", "494782at2759", "" ], [ "Q6AY39-1", "1037602at2759", "" ], [ "Q14U74-1", "203029at2759", "" ], [ "Q5M807-1", "1510545at2759", "" ], [ "P02764-1", "1257041at2759", "" ], [ "P02767-1", "1453185at2759", "" ], [ "D3ZNX2-1", "184308at2759", "" ], [ "D4A4W8-1", "1201455at2759", "" ], [ "Q6AYD2-1", "1451022at2759", "" ], [ "D4A4W0-1", "979582at2759", "" ], [ "D4A4W1-1", "1612806at2759", "" ], [ "D4A4W4-1", "616687at2759", "" ], [ "D4A4W5-1", "587717at2759", "" ], [ "D4A4W6-1", "1587548at2759", "" ], [ "D4A4W7-1", "1441982at2759", "" ], [ "G3V6I3-1", "1635950at2759", "" ] ] }, "readme": "Name\n - Rat UniProtKB Xref OrthoDB\n\nVersion\n - 1.4.5\n\nCreated on\n - 2019-09-06T14:06:38.984081\n\nModified on\n - \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 UniProtKB Xref OrthoDB contains rat [taxid:10116] UniProtKB canonical accessions cross-referenced to OrthoDB database accessions/identifiers. 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. The dataset is derived from 2019-05 UniProt release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\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-10116-rattus-norvegicus-2019-05.nt\n URI: https://data.glygen.org/ln2wwwdata/source/uniprot-proteome-10116-rattus-norvegicus-2019-05.nt\n Name: rat_protein_idmapping.csv\n URI: https://data.glygen.org/ln2wwwdata/reviewed/rat_protein_idmapping.csv\n Output Subdomain\n Name: rat_protein_xref_orthodb.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_xref_orthodb.csv\n Name: rat_protein_xref_orthodb.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_xref_orthodb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"Accession assigned to the protein isoform chosen to be the canonical sequence to which all positional annotation refers in UniProtKB database\"\n Unique Values: \"15727\"\n Name: \"database_label\"\n Description: \"Label or name assigned to the corresponding identifier in the source database\"\n Unique Values: \"1\"\n Name: \"database_id\"\n Description: \"Identifier in the database\"\n Unique Values: \"8949\"", "downloadurl": "/ln2data/releases/data/v-1.4.5/reviewed/rat_protein_xref_orthodb.csv" }