{ "bcoid": "GLY_000105", "title": "Mouse UniProtKB Xref NCBI Gene", "description": "The Mouse UniProtKB Xref NCBI Gene dataset contains mouse [taxid:10090] UniProtKB canonical accessions ...", "filename": "mouse_protein_xref_geneid.csv", "filetype": "csv", "categories": { "species": "Mus musculus", "molecule": "Protein", "tags": "Ncbi Gene cross-references", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q8BH24-1...", "protein_xref..." ], [ "Q8BH27-1...", "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" } ], [ "Q8BH24-1", "protein_xref_geneid", "99237", "" ], [ "Q8BH27-1", "protein_xref_geneid", "230316", "" ], [ "Q8BH26-1", "protein_xref_geneid", "320351", "" ], [ "Q80T32-1", "protein_xref_geneid", "243277", "" ], [ "B2RXV4-1", "protein_xref_geneid", "226844", "" ], [ "E9Q3P4-1", "protein_xref_geneid", "108000", "" ], [ "A5H0M4-1", "protein_xref_geneid", "70952", "" ], [ "P03899-1", "protein_xref_geneid", "17718", "" ], [ "P03899-1", "protein_xref_geneid", "3338896", "" ], [ "O35153-1", "protein_xref_geneid", "54399", "" ], [ "P03893-1", "protein_xref_geneid", "17717", "" ], [ "Q9QYH9-1", "protein_xref_geneid", "50930", "" ], [ "P52479-1", "protein_xref_geneid", "22224", "" ], [ "P02762-1", "protein_xref_geneid", "100038948", "" ], [ "P02762-1", "protein_xref_geneid", "100039177", "" ], [ "P02762-1", "protein_xref_geneid", "100189605", "" ], [ "Q9QYH6-1", "protein_xref_geneid", "94275", "" ], [ "Q08AU9-1", "protein_xref_geneid", "69066", "" ], [ "Q08AU7-1", "protein_xref_geneid", "68515", "" ], [ "Q5EBH1-1", "protein_xref_geneid", "54354", "" ], [ "Q80YU0-1", "protein_xref_geneid", "241850", "" ], [ "Q5SRT8-1", "protein_xref_geneid", "380694", "" ], [ "P70414-1", "protein_xref_geneid", "20541", "" ], [ "A0A0U1RNG7-1", "protein_xref_geneid", "233529", "" ], [ "P70419-1", "protein_xref_geneid", "14425", "" ], [ "Q9EP78-1", "protein_xref_geneid", "60322", "" ], [ "Q9EP79-1", "protein_xref_geneid", "113849", "" ], [ "Q9EP72-1", "protein_xref_geneid", "73024", "" ], [ "Q9EP73-1", "protein_xref_geneid", "60533", "" ], [ "Q9EP71-1", "protein_xref_geneid", "75646", "" ], [ "Q9EP75-1", "protein_xref_geneid", "64385", "" ], [ "Q8VF62-1", "protein_xref_geneid", "258412", "" ], [ "P30282-1", "protein_xref_geneid", "12445", "" ], [ "Q3UHI0-1", "protein_xref_geneid", "72972", "" ], [ "S4R213-1", "protein_xref_geneid", "242707", "" ], [ "Q91VV4-1", "protein_xref_geneid", "72121", "" ], [ "P53702-1", "protein_xref_geneid", "15159", "" ], [ "O08911-1", "protein_xref_geneid", "29857", "" ], [ "Q80WC9-1", "protein_xref_geneid", "231326", "" ], [ "O08912-1", "protein_xref_geneid", "14423", "" ], [ "O08915-1", "protein_xref_geneid", "11632", "" ], [ "O08914-1", "protein_xref_geneid", "14073", "" ], [ "O08917-1", "protein_xref_geneid", "14251", "" ], [ "Q80WC3-1", "protein_xref_geneid", "231861", "" ], [ "O08918-1", "protein_xref_geneid", "12452", "" ], [ "Q80WC1-1", "protein_xref_geneid", "320538", "" ], [ "Q80WC7-1", "protein_xref_geneid", "231801", "" ], [ "Q9JHY4-1", "protein_xref_geneid", "192201", "" ], [ "A0A3Q4EGJ1-1", "protein_xref_geneid", "381852", "" ], [ "Q8BYW1-1", "protein_xref_geneid", "232201", "" ], [ "G5E8Q8-1", "protein_xref_geneid", "224792", "" ], [ "Q66GT5-1", "protein_xref_geneid", "66461", "" ], [ "P50429-1", "protein_xref_geneid", "11881", "" ], [ "Q8BTJ4-1", "protein_xref_geneid", "224794", "" ], [ "P50427-1", "protein_xref_geneid", "20905", "" ], [ "P59708-1", "protein_xref_geneid", "66055", "" ], [ "E9PYR1-1", "protein_xref_geneid", "231863", "" ], [ "P04760-1", "protein_xref_geneid", "11449", "" ], [ "P59808-1", "protein_xref_geneid", "70097", "" ], [ "F8VQK3-1", "protein_xref_geneid", "234889", "" ], [ "Q9R1N9-1", "protein_xref_geneid", "12817", "" ], [ "A2AT96-1", "protein_xref_geneid", "258762", "" ], [ "Q3V3Q4-1", "protein_xref_geneid", "100033459", "" ], [ "Q3V3Q7-1", "protein_xref_geneid", "217893", "" ], [ "Q9D516-1", "protein_xref_geneid", "67736", "" ], [ "Q9D517-1", "protein_xref_geneid", "28169", "" ], [ "Q9D515-1", "protein_xref_geneid", "75140", "" ], [ "Q9D513-1", "protein_xref_geneid", "75178", "" ], [ "Q9D518-1", "protein_xref_geneid", "75823", "" ], [ "Q9D519-1", "protein_xref_geneid", "75071", "" ], [ "Q8K2M0-1", "protein_xref_geneid", "60441", "" ], [ "Q8K2M3-1", "protein_xref_geneid", "70118", "" ], [ "P21661-1", "protein_xref_geneid", "18549", "" ], [ "O55087-1", "protein_xref_geneid", "17259", "" ], [ "F6ZPB0-1", "protein_xref_geneid", "381104", "" ], [ "P58462-1", "protein_xref_geneid", "108655", "" ], [ "A2RSY6-1", "protein_xref_geneid", "98685", "" ], [ "Q8CB67-1", "protein_xref_geneid", "237253", "" ], [ "Q8VC03-1", "protein_xref_geneid", "225898", "" ], [ "Q8VC04-1", "protein_xref_geneid", "217203", "" ], [ "P22727-1", "protein_xref_geneid", "22420", "" ], [ "P59672-1", "protein_xref_geneid", "224650", "" ], [ "Q8BGW1-1", "protein_xref_geneid", "26383", "" ], [ "Q8BGW0-1", "protein_xref_geneid", "210757", "" ] ] }, "readme": "Name\n - Mouse UniProtKB Xref NCBI Gene\n\nVersion\n - 1.11.2\n\nCreated on\n - 2019-03-15T12:11:47.098435\n\nModified on\n - 2022-01-19T09:55:47.708582\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 Mouse UniProtKB Xref NCBI Gene dataset contains mouse [taxid:10090] UniProtKB canonical accessions cross-referenced to NCBI Gene database accessions/identifiers. The dataset is derived from 2019-09 UniProt 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: mouse_protein_masterlist.csv\n URI: https://data.glygen.org//ln2releases/data/v-1.11.2/reviewed/mouse_protein_masterlist.csv\n Name: uniprot-proteome-mus-musculus.nt\n URI: https://data.glygen.org//ln2downloads/ebi/2021_03/uniprot-proteome-mus-musculus.nt\n Output Subdomain\n Name: mouse_protein_xref_geneid.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_xref_geneid.csv\n Name: mouse_protein_xref_geneid.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_xref_geneid.stat.csv", "downloadurl": "/ln2data/releases/data/v-1.12.1/reviewed/mouse_protein_xref_geneid.csv" }