{ "bcoid": "GLY_000127", "title": "Human UniProtKB Xref RefSeq", "description": "The Human UniprotKB Xref RefSeq contains human [taxid:9606] UniProtKB canonical accessions cross-referenced ...", "filename": "human_protein_xref_refseq.csv", "filetype": "csv", "categories": { "species": "Homo Sapiens", "molecule": "Protein", "tags": "Refseq cross-references", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q8TBF4-1...", "NP_149105.3..." ], [ "Q9NRQ5-1...", "NP_064564.1..." ] ], "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" } ], [ "Q8TBF4-1", "NP_149105.3", "" ], [ "Q9NRQ5-1", "NP_064564.1", "" ], [ "Q5QJ38-1", "NP_001008536.1", "" ], [ "P20930-1", "NP_002007.1", "" ], [ "Q496A3-1", "NP_659463.1", "" ], [ "P83859-1", "NP_937823.1", "" ], [ "A0A0A0MQW5-1", "NP_001073903.1", "" ], [ "Q9H999-1", "NP_078870.1", "" ], [ "Q8NHX9-1", "NP_620714.2", "" ], [ "Q4VXU2-1", "NP_001118228.1", "" ], [ "Q9C0H9-5", "NP_079524.2", "" ], [ "O00244-1", "NP_004036.1", "" ], [ "Q3LI54-1", "NP_001092689.1", "" ], [ "Q7Z3T1-1", "NP_001001957.2", "" ], [ "P40425-1", "NP_002577.2", "" ], [ "Q9H2I8-1", "NP_114413.1", "" ], [ "P03891-1", "YP_003024027.1", "" ], [ "Q5VUR7-1", "NP_001012419.1", "" ], [ "P03897-1", "YP_003024033.1", "" ], [ "P02768-1", "NP_000468.1", "" ], [ "P05387-1", "NP_000995.1", "" ], [ "P02760-1", "NP_001624.1", "" ], [ "P02763-1", "NP_000598.2", "" ], [ "P02765-1", "NP_001613.2", "" ], [ "P02766-1", "NP_000362.1", "" ], [ "P18075-1", "NP_001710.1", "" ], [ "Q9UJ70-1", "NP_060037.3", "" ], [ "Q9UJ72-1", "NP_009124.2", "" ], [ "O60508-1", "NP_056975.1", "" ], [ "Q15165-2", "NP_000296.2", "" ], [ "Q15166-1", "NP_000931.1", "" ], [ "Q9P2J3-1", "NP_061335.1", "" ], [ "O15072-1", "NP_055058.2", "" ], [ "P41181-1", "NP_000477.1", "" ], [ "Q5VWT5-1", "NP_001004303.3", "" ], [ "P12074-1", "NP_004364.2", "" ], [ "Q96CS2-1", "NP_612452.1", "" ], [ "Q96CS3-1", "NP_055428.1", "" ], [ "Q9P219-1", "NP_001073883.2", "" ], [ "Q9BVC3-1", "NP_076999.2", "" ], [ "Q92831-1", "NP_003875.3", "" ], [ "Q92837-1", "NP_005470.2", "" ], [ "Q9H3M9-1", "NP_001129467.1", "" ], [ "P21452-1", "NP_001048.2", "" ], [ "P00540-1", "NP_005363.1", "" ], [ "Q9H3M0-1", "NP_002227.2", "" ], [ "Q9H845-1", "NP_054768.2", "" ], [ "Q9BZG2-1", "NP_149059.1", "" ], [ "Q9BVC6-1", "NP_076997.1", "" ], [ "P19099-1", "NP_000489.3", "" ], [ "P16402-1", "NP_005311.1", "" ], [ "A6NCC3-2", "NP_001264237.1", "" ], [ "Q05952-1", "NP_005416.1", "" ], [ "Q9UKZ9-1", "NP_037495.1", "" ], [ "P09001-1", "NP_009139.1", "" ], [ "P53708-1", "NP_003629.2", "" ], [ "P60520-1", "NP_009216.1", "" ], [ "Q9UKZ1-1", "NP_060016.3", "" ], [ "Q6NX45-1", "NP_001004309.2", "" ], [ "Q14566-1", "NP_005906.2", "" ], [ "O60741-1", "NP_066550.2", "" ], [ "Q6P1A2-1", "NP_005759.4", "" ], [ "A6NIR3-1", "NP_001137472.1", "" ], [ "Q9UHF3-1", "NP_057431.2", "" ], [ "Q9UHC6-1", "NP_054860.1", "" ], [ "P41212-1", "NP_001978.1", "" ], [ "Q92527-1", "NP_062618.2", "" ], [ "Q92521-1", "NP_004846.4", "" ], [ "Q92522-1", "NP_006017.1", "" ], [ "Q7L8L6-1", "NP_068598.1", "" ], [ "Q8N5F7-1", "NP_078804.2", "" ], [ "O14556-1", "NP_055179.1", "" ], [ "Q9H158-1", "NP_061721.2", "" ], [ "Q8N1A0-1", "NP_689562.1", "" ], [ "Q96DR8-1", "NP_477521.1", "" ], [ "Q9HAP2-1", "NP_055753.3", "" ], [ "A6NGR9-1", "NP_001094348.1", "" ], [ "P07204-1", "NP_000352.1", "" ], [ "P30874-1", "NP_001041.1", "" ], [ "Q9H211-1", "NP_112190.2", "" ], [ "Q9H210-1", "NP_003691.1", "" ], [ "Q9H213-1", "NP_054780.2", "" ], [ "Q96G27-1", "NP_036609.1", "" ], [ "P11597-1", "NP_000069.2", "" ] ] }, "readme": "Name\n - Human UniProtKB Xref RefSeq\n\nVersion\n - 1.4.5\n\nCreated on\n - 2019-03-15T16:20:41.396963\n\nModified on\n - 2019-09-12T15:42:41.572636\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 Human UniprotKB Xref RefSeq contains human [taxid:9606] UniProtKB canonical accessions cross-referenced to RefSeq database accessions/identifiers. The script extracts one-to-one UniProtKB isofrom ac to RefSeq ac and also UniProt ac to RefSeq ac where there is no UniProtKB isoforms other than the canonical ac. NCBI RefSeq is a comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein. The dataset is derived from 2019-05 UniProt release. The dataset is contributed by EMBL-EBI-UniProtKB and processed by GlyGen. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\n\nDescription Domain\n Keywords\n - protein accessions\n - RefSeq\n - cross-reference\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB canonical accessions that are cross-referenced to NCBI RefSeq 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-9606-homo-sapiens-2019-05.nt\n URI: https://data.glygen.org/ln2wwwdata/source/uniprot-proteome-9606-homo-sapiens-2019-05.nt\n Name: human_protein_idmapping.csv\n URI: https://data.glygen.org/ln2wwwdata/reviewed/human_protein_idmapping.csv\n Output Subdomain\n Name: human_protein_xref_refseq.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/human_protein_xref_refseq.csv\n Name: human_protein_xref_refseq.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/human_protein_xref_refseq.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: \"15594\"\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: \"15590\"", "downloadurl": "/ln2data/releases/data/v-1.4.5/reviewed/human_protein_xref_refseq.csv" }