{ "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": [ [ "D3ZB44-1...", "protein_xref..." ], [ "D3ZXJ3-1...", "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" } ], [ "D3ZB44-1", "protein_xref_oma", "PRVIIQL", "" ], [ "D3ZXJ3-1", "protein_xref_oma", "EENVYNH", "" ], [ "D3ZB49-1", "protein_xref_oma", "FGYDYPP", "" ], [ "D3ZB48-1", "protein_xref_oma", "HVTNTRR", "" ], [ "Q5RJZ1-1", "protein_xref_oma", "GNCATIV", "" ], [ "A0A0G2JVG5-1", "protein_xref_oma", "QWKEQQW", "" ], [ "A0A0G2JVG6-1", "protein_xref_oma", "NYTEHQS", "" ], [ "A0A0G2JVG8-1", "protein_xref_oma", "TIQGICK", "" ], [ "Q99372-1", "protein_xref_oma", "FGKSCGR", "" ], [ "A0A096MJY8-1", "protein_xref_oma", "NIEAMST", "" ], [ "A0A096MJY4-1", "protein_xref_oma", "RITEGWA", "" ], [ "A0A096MJY1-1", "protein_xref_oma", "DECWNGH", "" ], [ "A0A0G2KA92-1", "protein_xref_oma", "NIWKDDD", "" ], [ "A0A096MJY2-1", "protein_xref_oma", "QLGVCGW", "" ], [ "Q5RJK6-1", "protein_xref_oma", "ANIARVC", "" ], [ "P01946-1", "protein_xref_oma", "WKDMSAG", "" ], [ "Q63358-1", "protein_xref_oma", "QIHSVYI", "" ], [ "Q5M9G9-1", "protein_xref_oma", "EPVFTPY", "" ], [ "P30936-1", "protein_xref_oma", "VRAPSCQ", "" ], [ "Q9QYH1-1", "protein_xref_oma", "QYWQFFD", "" ], [ "P02764-1", "protein_xref_oma", "DCLRIPR", "" ], [ "P02767-1", "protein_xref_oma", "TWEPFAT", "" ], [ "D4A4W8-1", "protein_xref_oma", "HTSMLPM", "" ], [ "D4A4W9-1", "protein_xref_oma", "KTHAFAK", "" ], [ "D4A4W0-1", "protein_xref_oma", "TIACYAG", "" ], [ "D4A4W1-1", "protein_xref_oma", "IRYREHE", "" ], [ "D4A4W2-1", "protein_xref_oma", "EFWILLK", "" ], [ "F7EN52-1", "protein_xref_oma", "IAGRTMF", "" ], [ "D4A4W4-1", "protein_xref_oma", "DQLRRSW", "" ], [ "D4A4W5-1", "protein_xref_oma", "IVDAFYQ", "" ], [ "D4A4W6-1", "protein_xref_oma", "QARRPKV", "" ], [ "D4A4W7-1", "protein_xref_oma", "EHITDLK", "" ], [ "G3V6I3-1", "protein_xref_oma", "SWHPHTM", "" ], [ "P21932-1", "protein_xref_oma", "VPSKFTM", "" ], [ "Q8K4K5-1", "protein_xref_oma", "HACTILI", "" ], [ "Q4L0E8-1", "protein_xref_oma", "TYNEFQD", "" ], [ "G3V6I6-1", "protein_xref_oma", "DYCGIAM", "" ], [ "G3V6I4-1", "protein_xref_oma", "YPVKGCA", "" ], [ "P12749-1", "protein_xref_oma", "VRIMRGD", "" ], [ "O08812-1", "protein_xref_oma", "LMFGWAP", "" ], [ "A0A0G2K0T8-1", "protein_xref_oma", "CCHTMLG", "" ], [ "A0A0G2K0T4-1", "protein_xref_oma", "KRIRASW", "" ], [ "Q6P6Q9-1", "protein_xref_oma", "WKAEFRQ", "" ], [ "Q63544-1", "protein_xref_oma", "HAGPEDQ", "" ], [ "A0A0G2K0T7-1", "protein_xref_oma", "YGQSFVW", "" ], [ "P28648-1", "protein_xref_oma", "CFACCLS", "" ], [ "Q5U1W2-1", "protein_xref_oma", "HKAHKKM", "" ], [ "D3ZVR6-1", "protein_xref_oma", "MLLEIFW", "" ], [ "A0A0G2K1A3-1", "protein_xref_oma", "WRVEMSH", "" ], [ "A0A0G2K1A1-1", "protein_xref_oma", "MKKSKGH", "" ], [ "P01237-1", "protein_xref_oma", "GCHTSSL", "" ], [ "P33124-1", "protein_xref_oma", "IAKCPIV", "" ], [ "P01230-1", "protein_xref_oma", "PQLVCTY", "" ], [ "P09005-1", "protein_xref_oma", "HYHAEIF", "" ], [ "M0RB72-1", "protein_xref_oma", "MADSSWW", "" ], [ "M0RB75-1", "protein_xref_oma", "TVECCLC", "" ], [ "A0A0G2K8D0-1", "protein_xref_oma", "RTLNKFW", "" ], [ "Q9JHY1-1", "protein_xref_oma", "YSRGYFE", "" ], [ "P33568-1", "protein_xref_oma", "VPGGNIY", "" ], [ "P31646-1", "protein_xref_oma", "KPWPLIK", "" ], [ "E9PU34-1", "protein_xref_oma", "PDIFWDT", "" ], [ "Q02874-1", "protein_xref_oma", "GHNFPAK", "" ], [ "P56558-1", "protein_xref_oma", "YNQQCIR", "" ], [ "P08011-1", "protein_xref_oma", "CHHNDLE", "" ], [ "Q8CJ58-1", "protein_xref_oma", "MPNRQKQ", "" ], [ "P54690-1", "protein_xref_oma", "LTEVFAC", "" ], [ "Q99JD4-1", "protein_xref_oma", "FKHSRKD", "" ], [ "Q99JD1-1", "protein_xref_oma", "SALMIIM", "" ], [ "Q99JD2-1", "protein_xref_oma", "EPLHITQ", "" ], [ "Q7TP40-1", "protein_xref_oma", "NVHDQEN", "" ], [ "P83748-1", "protein_xref_oma", "ATENYPW", "" ], [ "P18508-1", "protein_xref_oma", "IIHTDMY", "" ], [ "P20420-1", "protein_xref_oma", "KWANIII", "" ], [ "P22002-1", "protein_xref_oma", "KQPQWLT", "" ], [ "M0R8G6-1", "protein_xref_oma", "RAPAQIF", "" ], [ "M0R8G5-1", "protein_xref_oma", "LAVMCSH", "" ], [ "M0R8G2-1", "protein_xref_oma", "SINEAVM", "" ], [ "Q02293-1", "protein_xref_oma", "THPLFNI", "" ], [ "M0R8G9-1", "protein_xref_oma", "IYFATSE", "" ], [ "D3ZGR8-1", "protein_xref_oma", "VICHPSH", "" ], [ "D3ZGR6-1", "protein_xref_oma", "KHLNVNC", "" ], [ "D3ZGR7-1", "protein_xref_oma", "GKGDAWS", "" ], [ "D3ZGR5-1", "protein_xref_oma", "ERIATPC", "" ], [ "Q8K5E0-1", "protein_xref_oma", "RFHFPFY", "" ] ] }, "readme": "Name\n - Rat UniProtKB Xref OMA\n\nVersion\n - 1.11.2\n\nCreated on\n - 2019-09-06T14:06:38.957228\n\nModified on\n - 2022-01-19T11:59:09.179208\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 OMA contains rat [taxid:10116] UniProtKB canonical accessions cross-referenced to OMA 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 - The OMA (Orthologous MAtrix) project is a method and database for the inference of orthologs among complete genomes. \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: rat_protein_masterlist.csv\n URI: https://data.glygen.org//ln2releases/data/v-1.11.2/reviewed/rat_protein_masterlist.csv\n Name: uniprot-proteome-rattus-norvegicus.nt\n URI: https://data.glygen.org//ln2downloads/ebi/2021_03/uniprot-proteome-rattus-norvegicus.nt\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", "downloadurl": "/ln2data/releases/data/v-1.12.1/reviewed/rat_protein_xref_oma.csv" }