{ "bcoid": "GLY_000229", "title": "Rat UniProtKB Xref OMA", "description": "The Rat UniProtKB Xref OMA contains rat [taxid:10116] UniProtKB canonical accessions cross-referenced ...", "filename": "rat_protein_xref_oma.csv", "filetype": "csv", "categories": { "species": "Rattus Norvegicus", "molecule": "Protein", "tags": "Oma cross-references", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q5RJK9-1...", "RGKDHAK..." ], [ "Q5RJK8-1...", "DMTGRAK..." ] ], "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", "RGKDHAK", "" ], [ "Q5RJK8-1", "DMTGRAK", "" ], [ "D3ZZY8-1", "NVASQDQ", "" ], [ "D3ZG10-1", "AKFDFMA", "" ], [ "D3ZB44-1", "CHVMLEN", "" ], [ "D3ZZY2-1", "TTLPGWG", "" ], [ "Q5RJK0-1", "YIGHVTQ", "" ], [ "Q5RJK3-1", "NFHSKIL", "" ], [ "Q5RJK5-1", "MAEFSVE", "" ], [ "D3ZB48-1", "NTMVAKK", "" ], [ "Q5RJK6-1", "AGYKSLC", "" ], [ "A0A0G2K0H3-1", "CDWLGEK", "" ], [ "Q5XIH0-1", "EICLSEC", "" ], [ "Q6MG51-1", "GWLPRPW", "" ], [ "F1M2W7-1", "NMNVWGA", "" ], [ "Q6MG53-1", "VRTCHFC", "" ], [ "D4AAV0-1", "PQHEEEN", "" ], [ "Q4KLP0-1", "QGINQEC", "" ], [ "M0RAP0-1", "PIAYEFM", "" ], [ "M0RAP1-1", "CRRRYKF", "" ], [ "M0RAP6-1", "PCQMVSP", "" ], [ "A0A0G2JVG5-1", "RCAEQIS", "" ], [ "A0A0G2JVG6-1", "SNFTEHL", "" ], [ "M0RAP5-1", "CVIPIAG", "" ], [ "A0A0G2JVG8-1", "PEDQAVY", "" ], [ "F1M1W4-1", "GEFYPVP", "" ], [ "M0R5G7-1", "RYAYSTY", "" ], [ "Q9WUD9-1", "NHYRKHA", "" ], [ "M0R5G5-1", "WCERGGG", "" ], [ "Q925Q4-1", "CRCDMCR", "" ], [ "Q9QX69-1", "QCAEVIW", "" ], [ "A0A0G2K1J7-1", "TSHTPCT", "" ], [ "P30348-1", "QSGPHCK", "" ], [ "A0A0G2JUK9-1", "CMYLKPP", "" ], [ "D3ZLV0-1", "LAISCND", "" ], [ "D3ZZY1-1", "ARDARNQ", "" ], [ "D3ZLV5-1", "GHKRISE", "" ], [ "A0A096MJY8-1", "MSQAEFY", "" ], [ "Q8VHI8-1", "CVFYIVQ", "" ], [ "D3ZLV9-1", "DNCLGMH", "" ], [ "A0A096MJY4-1", "HLVMPNS", "" ], [ "O88181-1", "MTTMEGA", "" ], [ "A0A096MJY1-1", "TVWRTMQ", "" ], [ "Q2KMM2-1", "HDPREGF", "" ], [ "Q2KN99-1", "NAEAQEM", "" ], [ "A0A096MJY2-1", "WMCLKIV", "" ], [ "D4A838-1", "MIHFHFR", "" ], [ "D3ZKU2-1", "VSHSFCE", "" ], [ "A0A0G2K5R6-1", "SKRYYCK", "" ], [ "D4A830-1", "DPSIDKW", "" ], [ "D4A831-1", "WERRIRT", "" ], [ "D4A832-1", "QLANSFP", "" ], [ "D3ZZY5-1", "LWYTTKT", "" ], [ "D4A834-1", "FCWTDGS", "" ], [ "M0R6T1-1", "SPYLTPH", "" ], [ "A0A0G2JZ74-1", "LTHIHTY", "" ], [ "B0JYS4-1", "IKTLTHK", "" ], [ "A0A0G2K5R4-1", "KFWRKPV", "" ], [ "O54783-1", "MVMPFNK", "" ], [ "M0RCZ9-1", "CKSICGE", "" ], [ "M0RCZ7-1", "RCIWHEK", "" ], [ "M0RCZ2-1", "CLFFAGT", "" ], [ "F1M2W3-1", "ICDATTH", "" ], [ "P01946-1", "SKHILAH", "" ], [ "M0RCZ1-1", "VVAECHM", "" ], [ "P56571-1", "AQVQCFA", "" ], [ "P56574-1", "FEKHYKP", "" ], [ "Q5BK10-1", "YLTEMEW", "" ], [ "M0R7U6-1", "DGAKYVH", "" ], [ "Q6P7Q1-1", "STNCLRV", "" ], [ "M0R7U1-1", "CSNQRLK", "" ], [ "Q6P7Q4-1", "NWGTESY", "" ], [ "F1M4Y5-1", "HLMKHYP", "" ], [ "F7FL53-1", "TVVRGFF", "" ], [ "Q6AY39-1", "RFTLREH", "" ], [ "Q14U74-1", "FWAMGRV", "" ], [ "Q5M807-1", "YAGDHQG", "" ], [ "P02767-1", "HRHYTIA", "" ], [ "D3ZNX2-1", "MDLTVNH", "" ], [ "D4A4W8-1", "PDSQYDA", "" ], [ "D4A4W9-1", "KTHAFAK", "" ], [ "D4A4W0-1", "PTTCACL", "" ], [ "D4A4W1-1", "RANRSET", "" ], [ "D4A4W2-1", "AAWFELF", "" ] ] }, "readme": "Name\n - Rat UniProtKB Xref OMA\n\nVersion\n - 1.4.5\n\nCreated on\n - 2019-09-06T14:06:38.957228\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 OMA contains rat [taxid:10116] UniProtKB canonical accessions cross-referenced to OMA database accessions/identifiers. The OMA (Orthologous MAtrix) project is a method and database for the inference of orthologs among complete genomes. 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 - OMA\n - cross-reference\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB canonical accessions that are cross-referenced to OMA 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_oma.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_xref_oma.csv\n Name: rat_protein_xref_oma.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_xref_oma.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: \"16994\"\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: \"16991\"", "downloadurl": "/ln2data/releases/data/v-1.4.5/reviewed/rat_protein_xref_oma.csv" }