{ "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...", "protein_xref..." ], [ "Q5RJK8-1...", "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" } ], [ "Q5RJK9-1", "protein_xref_oma", "RGKDHAK", "" ], [ "Q5RJK8-1", "protein_xref_oma", "KFDCSAM", "" ], [ "D3ZZY8-1", "protein_xref_oma", "PAIIRIS", "" ], [ "D3ZG10-1", "protein_xref_oma", "AKFDFMA", "" ], [ "D3ZB44-1", "protein_xref_oma", "PRVIIQL", "" ], [ "D3ZZY2-1", "protein_xref_oma", "HRNTSKW", "" ], [ "Q5RJK0-1", "protein_xref_oma", "VYAFCTM", "" ], [ "Q5RJK3-1", "protein_xref_oma", "ALQAWFP", "" ], [ "P30349-1", "protein_xref_oma", "NSNFRMK", "" ], [ "Q5RJK5-1", "protein_xref_oma", "KWQGTDE", "" ], [ "D3ZB48-1", "protein_xref_oma", "LEFNNHA", "" ], [ "Q5RJK6-1", "protein_xref_oma", "TIKHEVG", "" ], [ "A0A0G2K0H3-1", "protein_xref_oma", "TNCANGH", "" ], [ "Q5XIH0-1", "protein_xref_oma", "MAGNDKQ", "" ], [ "Q6MG51-1", "protein_xref_oma", "WLPRPWG", "" ], [ "F1M2W7-1", "protein_xref_oma", "RHVACQS", "" ], [ "Q6MG53-1", "protein_xref_oma", "CMVISIY", "" ], [ "D4AAV0-1", "protein_xref_oma", "IQETFPF", "" ], [ "Q4KLP0-1", "protein_xref_oma", "GMAIDNP", "" ], [ "M0RAP0-1", "protein_xref_oma", "ATNMRIY", "" ], [ "M0RAP1-1", "protein_xref_oma", "GPFDEQI", "" ], [ "M0RAP6-1", "protein_xref_oma", "KSHIDDC", "" ], [ "A0A0G2JVG5-1", "protein_xref_oma", "QWKEQQW", "" ], [ "A0A0G2JVG6-1", "protein_xref_oma", "HIYTINL", "" ], [ "M0RAP5-1", "protein_xref_oma", "RNGNVMA", "" ], [ "A0A0G2JVG8-1", "protein_xref_oma", "PEDQAVY", "" ], [ "F1M1W4-1", "protein_xref_oma", "NMTENMA", "" ], [ "M0R5G7-1", "protein_xref_oma", "RYAYSTY", "" ], [ "Q9WUD9-1", "protein_xref_oma", "XIASGMA", "" ], [ "M0R5G5-1", "protein_xref_oma", "HLEHSFT", "" ], [ "Q925Q4-1", "protein_xref_oma", "SRCCTIS", "" ], [ "Q9QX69-1", "protein_xref_oma", "ACMFADW", "" ], [ "A0A0G2K1J7-1", "protein_xref_oma", "TQHNRTQ", "" ], [ "P30348-1", "protein_xref_oma", "INTHSKF", "" ], [ "A0A0G2JUK9-1", "protein_xref_oma", "IILCSYV", "" ], [ "D3ZLV0-1", "protein_xref_oma", "LAISCND", "" ], [ "D3ZLV5-1", "protein_xref_oma", "TPGKFDP", "" ], [ "A0A096MJY8-1", "protein_xref_oma", "AYDGLYD", "" ], [ "Q8VHI8-1", "protein_xref_oma", "CVFYIVQ", "" ], [ "D3ZLV9-1", "protein_xref_oma", "TTITDCY", "" ], [ "A0A096MJY4-1", "protein_xref_oma", "LVMPNSR", "" ], [ "O88181-1", "protein_xref_oma", "DFRLGDS", "" ], [ "A0A096MJY1-1", "protein_xref_oma", "TERLEGP", "" ], [ "Q2KMM2-1", "protein_xref_oma", "HDPREGF", "" ], [ "Q2KN99-1", "protein_xref_oma", "NVGNQAG", "" ], [ "A0A096MJY2-1", "protein_xref_oma", "NAVLYFR", "" ], [ "D4A838-1", "protein_xref_oma", "LMMSWRL", "" ], [ "Q5M808-1", "protein_xref_oma", "QRRMEQN", "" ], [ "D3ZKU2-1", "protein_xref_oma", "IILGFDI", "" ], [ "A0A0G2K5R6-1", "protein_xref_oma", "RIIRRGF", "" ], [ "D4A830-1", "protein_xref_oma", "WTQAKCE", "" ], [ "D4A831-1", "protein_xref_oma", "LWDDSRT", "" ], [ "D4A832-1", "protein_xref_oma", "VCYEQEL", "" ], [ "D3ZZY5-1", "protein_xref_oma", "WVWLEEH", "" ], [ "D4A834-1", "protein_xref_oma", "FCWTDGS", "" ], [ "M0R6T1-1", "protein_xref_oma", "SPYLTPH", "" ], [ "A0A0G2JZ74-1", "protein_xref_oma", "LTHIHTY", "" ], [ "B0JYS4-1", "protein_xref_oma", "IKTLTHK", "" ], [ "A0A0G2K5R4-1", "protein_xref_oma", "CKENFDD", "" ], [ "O54783-1", "protein_xref_oma", "NIDFEYQ", "" ], [ "M0RCZ9-1", "protein_xref_oma", "SSFHRIM", "" ], [ "M0RCZ7-1", "protein_xref_oma", "RCIWHEK", "" ], [ "M0RCZ2-1", "protein_xref_oma", "GPTEMPH", "" ], [ "F1M2W3-1", "protein_xref_oma", "RMESHTQ", "" ], [ "P01946-1", "protein_xref_oma", "LERMFIT", "" ], [ "M0RCZ1-1", "protein_xref_oma", "VVAECHM", "" ], [ "P56571-1", "protein_xref_oma", "HHIFDGI", "" ], [ "P56574-1", "protein_xref_oma", "EATLKYG", "" ], [ "Q5BK10-1", "protein_xref_oma", "SCQDFQE", "" ], [ "M0R7U6-1", "protein_xref_oma", "DGAKYVH", "" ], [ "Q6P7Q1-1", "protein_xref_oma", "LVQWDAG", "" ], [ "M0R7U1-1", "protein_xref_oma", "IMECGEP", "" ], [ "Q6P7Q4-1", "protein_xref_oma", "NWGTESY", "" ], [ "F1M4Y5-1", "protein_xref_oma", "TNPGESQ", "" ], [ "F7FL53-1", "protein_xref_oma", "DCVDAPA", "" ], [ "Q6AY39-1", "protein_xref_oma", "YRQDFRF", "" ], [ "Q14U74-1", "protein_xref_oma", "FWAMGRV", "" ], [ "Q5M807-1", "protein_xref_oma", "WPCLHQV", "" ], [ "P02767-1", "protein_xref_oma", "EPFATGK", "" ], [ "D3ZNX2-1", "protein_xref_oma", "ITRSHTI", "" ], [ "D4A4W8-1", "protein_xref_oma", "HTSMLPM", "" ], [ "D4A4W9-1", "protein_xref_oma", "KTHAFAK", "" ], [ "D4A4W0-1", "protein_xref_oma", "TIACYAG", "" ], [ "D4A4W1-1", "protein_xref_oma", "FHATTES", "" ] ] }, "readme": "Name\n - Rat UniProtKB Xref OMA\n\nVersion\n - 1.8.24\n\nCreated on\n - 2019-09-06T14:06:38.957228\n\nModified on\n - 2020-04-10T11:53:38.323623\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 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: uniprot-proteome-rattus-norvegicus.nt\n URI: https://data.glygen.org/ln2data/releases/data/v-1.8.24/source/uniprot-proteome-rattus-norvegicus.nt\n Name: rat_protein_masterlist.csv\n URI: https://data.glygen.org/ln2data/releases/data/v-1.8.24/reviewed/rat_protein_masterlist.csv\n Output Subdomain\n Name: rat_protein_xref_oma.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.8.24/reviewed/rat_protein_xref_oma.csv\n Name: rat_protein_xref_oma.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.8.24/reviewed/rat_protein_xref_oma.stat.csv\n\nFields\n Name: \"src_xref_key\"\n Description: \"Source Xref key\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"119\"\n Name: \"title\"\n Description: \"Title of the published article in the journal\"\n Unique Values: \"119\"\n Name: \"src_xref_id\"\n Description: \"Source X-ref ID\"\n Unique Values: \"120\"\n Name: \"journal_name\"\n Description: \"The name of the journal in which the article is published\"\n Unique Values: \"49\"\n Name: \"authors\"\n Description: \"NA\"\n Unique Values: \"118\"\n Name: \"publication_date\"\n Description: \"Contains the full date on which the issue of the journal was published. Sourced from MEDLINE/PubMed data element(fields) description.\"\n Unique Values: \"117\"\n Name: \"glytoucan_ac\"\n Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n Unique Values: \"115\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-1.8.24/reviewed/rat_protein_xref_oma.csv" }