{ "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": [ [ "P30613-1...", "protein_xref..." ], [ "Q8N6H7-1...", "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" } ], [ "P30613-1", "protein_xref_geneid", "5313", "" ], [ "Q8N6H7-1", "protein_xref_geneid", "84364", "" ], [ "Q96J66-1", "protein_xref_geneid", "85320", "" ], [ "Q96J65-1", "protein_xref_geneid", "94160", "" ], [ "Q8NC06-1", "protein_xref_geneid", "79777", "" ], [ "Q8NBW4-1", "protein_xref_geneid", "153129", "" ], [ "P40424-1", "protein_xref_geneid", "5087", "" ], [ "P40425-1", "protein_xref_geneid", "5089", "" ], [ "P40426-1", "protein_xref_geneid", "5090", "" ], [ "P40429-1", "protein_xref_geneid", "23521", "" ], [ "P62873-1", "protein_xref_geneid", "2782", "" ], [ "Q9H2I8-1", "protein_xref_geneid", "83938", "" ], [ "H0YL14-1", "protein_xref_geneid", "90120", "" ], [ "Q9GZS3-1", "protein_xref_geneid", "80349", "" ], [ "Q5VVP1-1", "protein_xref_geneid", "389730", "" ], [ "Q8N865-1", "protein_xref_geneid", "136895", "" ], [ "A6NIR3-1", "protein_xref_geneid", "729092", "" ], [ "Q86VY4-1", "protein_xref_geneid", "85453", "" ], [ "Q86VY9-1", "protein_xref_geneid", "114801", "" ], [ "Q9Y5S9-1", "protein_xref_geneid", "9939", "" ], [ "P19075-1", "protein_xref_geneid", "7103", "" ], [ "Q96QE4-1", "protein_xref_geneid", "114659", "" ], [ "Q99519-1", "protein_xref_geneid", "4758", "" ], [ "O15417-1", "protein_xref_geneid", "84629", "" ], [ "Q96RU7-1", "protein_xref_geneid", "57761", "" ], [ "Q96RU3-1", "protein_xref_geneid", "23048", "" ], [ "Q96RU2-1", "protein_xref_geneid", "57646", "" ], [ "Q01813-1", "protein_xref_geneid", "5214", "" ], [ "Q96RU8-1", "protein_xref_geneid", "10221", "" ], [ "Q6ZRV2-1", "protein_xref_geneid", "286077", "" ], [ "P16520-1", "protein_xref_geneid", "2784", "" ], [ "Q8NCJ5-1", "protein_xref_geneid", "84926", "" ], [ "Q9Y296-1", "protein_xref_geneid", "51399", "" ], [ "Q9Y297-1", "protein_xref_geneid", "8945", "" ], [ "Q9Y294-1", "protein_xref_geneid", "25842", "" ], [ "Q9Y295-1", "protein_xref_geneid", "4733", "" ], [ "Q6ICB4-1", "protein_xref_geneid", "150368", "" ], [ "Q6ICB0-1", "protein_xref_geneid", "27351", "" ], [ "P17693-1", "protein_xref_geneid", "3135", "" ], [ "O00507-1", "protein_xref_geneid", "8287", "" ], [ "O00505-1", "protein_xref_geneid", "3839", "" ], [ "O00501-1", "protein_xref_geneid", "7122", "" ], [ "O15033-1", "protein_xref_geneid", "9870", "" ], [ "Q8IYD2-1", "protein_xref_geneid", "55220", "" ], [ "Q8IYD1-1", "protein_xref_geneid", "23708", "" ], [ "Q8IYD9-1", "protein_xref_geneid", "162681", "" ], [ "Q8IYD8-1", "protein_xref_geneid", "57697", "" ], [ "Q9H0H3-1", "protein_xref_geneid", "64410", "" ], [ "Q8IVD9-1", "protein_xref_geneid", "23386", "" ], [ "P24903-1", "protein_xref_geneid", "1572", "" ], [ "Q5M9N0-1", "protein_xref_geneid", "339965", "" ], [ "Q8N7C0-1", "protein_xref_geneid", "440699", "" ], [ "O00560-1", "protein_xref_geneid", "6386", "" ], [ "Q9UPQ0-1", "protein_xref_geneid", "22998", "" ], [ "Q92552-1", "protein_xref_geneid", "23107", "" ], [ "Q9NV23-1", "protein_xref_geneid", "55301", "" ], [ "Q9NV29-1", "protein_xref_geneid", "55273", "" ], [ "Q9UQ26-6", "protein_xref_geneid", "9699", "" ], [ "P0C7I6-2", "protein_xref_geneid", "126075", "" ], [ "P0C7I0-1", "protein_xref_geneid", "392188", "" ], [ "Q5HYW2-1", "protein_xref_geneid", "340527", "" ], [ "Q5HYW3-1", "protein_xref_geneid", "340526", "" ], [ "Q9Y5J9-1", "protein_xref_geneid", "26521", "" ], [ "Q8N8Q8-1", "protein_xref_geneid", "285521", "" ], [ "P45984-1", "protein_xref_geneid", "5601", "" ], [ "Q969H0-1", "protein_xref_geneid", "55294", "" ], [ "Q7Z5G4-1", "protein_xref_geneid", "51125", "" ], [ "Q9Y5J6-1", "protein_xref_geneid", "26515", "" ], [ "Q9Y5J7-1", "protein_xref_geneid", "26520", "" ], [ "P27469-1", "protein_xref_geneid", "50486", "" ], [ "Q9H239-1", "protein_xref_geneid", "79148", "" ], [ "Q9H237-1", "protein_xref_geneid", "64840", "" ], [ "Q8NEQ5-1", "protein_xref_geneid", "128346", "" ], [ "Q8NEQ6-1", "protein_xref_geneid", "149563", "" ], [ "O75078-1", "protein_xref_geneid", "4185", "" ], [ "Q9BSA4-1", "protein_xref_geneid", "94015", "" ], [ "Q9C0D0-1", "protein_xref_geneid", "221692", "" ], [ "Q14584-1", "protein_xref_geneid", "10781", "" ], [ "P16499-1", "protein_xref_geneid", "5145", "" ], [ "Q9H7J1-1", "protein_xref_geneid", "90673", "" ], [ "O60830-1", "protein_xref_geneid", "10245", "" ], [ "O60831-1", "protein_xref_geneid", "11230", "" ], [ "O60832-1", "protein_xref_geneid", "1736", "" ], [ "O14579-1", "protein_xref_geneid", "11316", "" ] ] }, "readme": "Name\n - Human UniProtKB Xref NCBI Gene\n\nVersion\n - v-2.1.1\n\nCreated on\n - 2019-03-15T12:11:47.098435\n\nModified on\n - 2022-09-26T08:56:48.503378\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Jingyue Wu [jingyue.wu@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/glygener/glygen-backend-integration/blob/master/dataset-maker/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: /data/shared/glyds/downloads/ebi/2023_02/uniprot-proteome-homo-sapiens.nt\n Output Subdomain\n Name: human_protein_xref_geneid.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.1.1/reviewed/human_protein_xref_geneid.csv\n Name: human_protein_xref_geneid.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.1.1/reviewed/human_protein_xref_geneid.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"18902\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"19077\"\n Name: \"xref_label\"\n Description: \"Label/Name associated with x-ref\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-2.1.1/reviewed/human_protein_xref_geneid.csv" }