{ "bcoid": "GLY_000104", "title": "Human UniProtKB Xref NCBI Gene", "description": "The Human UniProtKB Xref NCBI Gene dataset contains human [taxid:9606] UniProtKB canonical accessions ...", "filename": "human_protein_xref_geneid.csv", "filetype": "csv", "categories": { "species": "Homo sapiens", "molecule": "Protein", "tags": "Ncbi Gene cross-references", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q8TBF5-1...", "54965..." ], [ "Q8TBF4-1...", "85437..." ] ], "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" } ], [ "Q8TBF5-1", "54965", "" ], [ "Q8TBF4-1", "85437", "" ], [ "Q9NRJ4-1", "56995", "" ], [ "Q9NQ79-1", "55118", "" ], [ "Q9NVL8-1", "55195", "" ], [ "Q9NRQ5-1", "56935", "" ], [ "Q8IZF5-1", "165082", "" ], [ "P30613-1", "5313", "" ], [ "Q5H9L4-1", "54457", "" ], [ "Q9BZL4-1", "54776", "" ], [ "Q9NVL1-1", "55199", "" ], [ "Q5QJ38-1", "126637", "" ], [ "Q9NQ75-1", "57091", "" ], [ "P20930-1", "2312", "" ], [ "P20933-1", "175", "" ], [ "P20936-1", "5921", "" ], [ "Q8NFX7-1", "29091", "" ], [ "Q9UM21-1", "11320", "" ], [ "Q496A3-1", "221409", "" ], [ "P83859-1", "347148", "" ], [ "P40617-1", "10124", "" ], [ "Q70EL4-1", "124739", "" ], [ "Q8TBF2-1", "127281", "" ], [ "Q15573-1", "9015", "" ], [ "Q15572-1", "9013", "" ], [ "Q9BQP9-1", "128861", "" ], [ "Q9H999-1", "79646", "" ], [ "P23919-1", "1841", "" ], [ "Q8NHX4-1", "130560", "" ], [ "Q8NHX9-1", "219931", "" ], [ "A8MU46-1", "219537", "" ], [ "Q6ZNW5-1", "390637", "" ], [ "Q9NXR8-1", "54556", "" ], [ "Q9C0H2-1", "80727", "" ], [ "Q9C0H5-1", "80728", "" ], [ "Q4VXU2-1", "80336", "" ], [ "Q9C0H6-1", "56062", "" ], [ "Q9C0H9-5", "80725", "" ], [ "Q9NXR1-2", "54820", "" ], [ "Q00537-1", "5128", "" ], [ "Q00536-1", "5127", "" ], [ "Q9NXR5-1", "55608", "" ], [ "Q00532-1", "8814", "" ], [ "Q96J66-1", "85320", "" ], [ "O00244-1", "475", "" ], [ "Q9UBM8-1", "25834", "" ], [ "Q9H2V7-1", "83985", "" ], [ "O00241-1", "10326", "" ], [ "O00716-1", "1871", "" ], [ "Q8IX01-1", "10147", "" ], [ "Q9UBM1-1", "10400", "" ], [ "A8MTA8-1", "730112", "" ], [ "Q9UBM4-1", "26254", "" ], [ "P24522-1", "1647", "" ], [ "Q13835-1", "5317", "" ], [ "Q7Z3T1-1", "343171", "" ], [ "A0AVF1-1", "79989", "" ], [ "P40424-1", "5087", "" ], [ "P40425-1", "5089", "" ], [ "P09001-1", "11222", "" ], [ "Q8IZK6-1", "255231", "" ], [ "P40429-1", "23521", "" ], [ "P51991-1", "220988", "" ], [ "Q13838-1", "7919", "" ], [ "O00337-1", "9154", "" ], [ "Q8TDW7-3", "120114", "" ], [ "Q5M775-1", "92521", "" ], [ "Q8WTV0-1", "949", "" ], [ "Q9H2I8-1", "83938", "" ], [ "P08842-1", "412", "" ], [ "P03891-1", "4536", "" ], [ "Q5VUR7-1", "441425", "" ], [ "P48960-1", "976", "" ], [ "P03897-1", "4537", "" ], [ "P02768-1", "213", "" ], [ "P20645-1", "4074", "" ], [ "P05386-1", "6176", "" ], [ "P05387-1", "6181", "" ], [ "P24863-1", "892", "" ], [ "P08559-1", "5160", "" ], [ "P02760-1", "259", "" ], [ "P02763-1", "5004", "" ], [ "P02765-1", "197", "" ], [ "P02766-1", "7276", "" ] ] }, "readme": "Name\n - Human UniProtKB Xref NCBI Gene\n\nVersion\n - 1.5.23\n\nCreated on\n - 2019-03-15T12:11:47.098435\n\nModified on\n - 2020-04-10T11:35:13.079947\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 NCBI Gene dataset contains human [taxid:9606] UniProtKB canonical accessions cross-referenced to NCBI Gene 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 - NCBI Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.\n\nDescription Domain\n Keywords\n - gene id\n - NCBI gene\n - cross-reference\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB canonical accessions that are cross-referenced to NCBI Gene 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-homo-sapiens.nt\n URI: https://data.glygen.org/ln2wwwdata/source/uniprot-proteome-homo-sapiens.nt\n Name: human_protein_masterlist.csv\n URI: https://data.glygen.org/ln2wwwdata/reviewed/human_protein_masterlist.csv\n Output Subdomain\n Name: human_protein_xref_geneid.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/human_protein_xref_geneid.csv\n Name: human_protein_xref_geneid.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/human_protein_xref_geneid.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: \"18869\"\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: \"19022\"", "downloadurl": "/ln2data/releases/data/v-1.5.23/reviewed/human_protein_xref_geneid.csv" }