{ "bcoid": "GLY_000128", "title": "Mouse UniProtKB Xref RefSeq", "description": "The Mouse UniProtKB Xref RefSeq contains mouse [taxid:10090] UniProtKB canonical accessions cross-referenced ...", "filename": "mouse_protein_xref_refseq.csv", "filetype": "csv", "categories": { "status": "Reviewed" }, "minitable": { "content": [ [ "B2RXV4-1...", "NP_001074728..." ], [ "P52479-1...", "NP_001297559..." ] ], "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" } ], [ "B2RXV4-1", "NP_001074728.1", "NP_001074728.1" ], [ "P52479-1", "NP_001297559.1", "NP_001297559.1" ], [ "Q08AU7-1", "NP_081027.1", "NP_081027.1" ], [ "Q5EBH1-1", "NP_061220.2", "NP_061220.2" ], [ "Q80WC9-1", "NP_776126.1", "NP_776126.1" ], [ "Q80WC1-1", "NP_796159.3", "NP_796159.3" ], [ "Q80WC7-1", "NP_835456.1", "NP_835456.1" ], [ "Q91ZK4-1", "NP_570935.3", "NP_570935.3" ], [ "Q8BZM0-1", "NP_001298065.1", "NP_001298065.1" ], [ "Q4VC33-1", "NP_067475.2", "NP_067475.2" ], [ "Q8BTJ4-1", "NP_950181.2", "NP_950181.2" ], [ "Q99LV7-1", "NP_077784.2", "NP_077784.2" ], [ "Q3UHF3-1", "NP_766181.2", "NP_766181.2" ], [ "Q9D516-1", "NP_080626.1", "NP_080626.1" ], [ "Q8K2M0-1", "NP_077139.2", "NP_077139.2" ], [ "Q8K2M3-1", "NP_081599.2", "NP_081599.2" ], [ "Q8BIQ5-1", "NP_573459.1", "NP_573459.1" ], [ "Q6P3D7-1", "NP_035591.3", "NP_035591.3" ], [ "Q8BW86-1", "NP_001138924.1", "NP_001138924.1" ], [ "Q8BW88-1", "NP_766229.2", "NP_766229.2" ], [ "Q8BGW0-1", "NP_848781.1", "NP_848781.1" ], [ "Q8BGW2-1", "NP_001171284.1", "NP_001171284.1" ], [ "Q6PDM2-1", "NP_775550.2", "NP_775550.2" ], [ "Q8BGW6-1", "NP_848864.1", "NP_848864.1" ], [ "Q499E4-1", "NP_082534.2", "NP_082534.2" ], [ "Q499E5-1", "NP_001107783.1", "NP_001107783.1" ], [ "Q499E6-1", "NP_808241.2", "NP_808241.2" ], [ "A2AAE1-1", "NP_766267.2", "NP_766267.2" ], [ "Q3TNL8-1", "NP_001001738.2", "NP_001001738.2" ], [ "Q9Z277-1", "NP_035844.2", "NP_035844.2" ], [ "Q9WVL3-1", "NP_035520.1", "NP_035520.1" ], [ "Q8R4P9-1", "NP_733780.1", "NP_733780.1" ], [ "Q5NBU8-1", "NP_001032802.2", "NP_001032802.2" ], [ "Q91YI4-1", "NP_001258289.1", "NP_001258289.1" ], [ "Q5NCY3-1", "NP_001038990.1", "NP_001038990.1" ], [ "Q9ESN9-1", "NP_038959.2", "NP_038959.2" ], [ "Q9ESN5-1", "XP_017171041.1", "XP_017171041.1" ], [ "Q9ESN3-1", "NP_068565.1", "NP_068565.1" ], [ "Q8BTU1-1", "NP_032213.2", "NP_032213.2" ], [ "Q5U4C1-1", "NP_001004359.1", "NP_001004359.1" ], [ "Q9D5T7-1", "NP_001276461.1", "NP_001276461.1" ], [ "Q9ERD6-1", "NP_001153437.1", "NP_001153437.1" ], [ "P00520-1", "NP_033724.2", "NP_033724.2" ], [ "P08730-1", "NP_034792.1", "NP_034792.1" ], [ "Q8VCU1-1", "NP_653094.2", "NP_653094.2" ], [ "O88454-1", "NP_032457.1", "NP_032457.1" ], [ "Q80W69-1", "NP_082785.1", "NP_082785.1" ], [ "P35438-1", "NP_032195.1", "NP_032195.1" ], [ "Q3UTQ8-1", "NP_001019795.1", "NP_001019795.1" ], [ "A0JP43-1", "NP_795939.2", "NP_795939.2" ], [ "Q8VEK3-1", "NP_058085.2", "NP_058085.2" ], [ "Q8VEK2-1", "NP_666114.1", "NP_666114.1" ], [ "Q923B0-1", "NP_663441.1", "NP_663441.1" ], [ "Q9Z1Z0-1", "NP_062363.1", "NP_062363.1" ], [ "Q8C0V9-1", "NP_082403.2", "NP_082403.2" ], [ "Q8C0V1-1", "NP_851289.2", "NP_851289.2" ], [ "Q9R007-3", "NP_001033693.1", "NP_001033693.1" ], [ "Q3TKT4-1", "NP_001167550.1", "NP_001167550.1" ], [ "P43006-1", "NP_001070982.1", "NP_001070982.1" ], [ "Q91VT1-1", "NP_081022.2", "NP_081022.2" ], [ "Q0VGY8-1", "NP_938036.2", "NP_938036.2" ], [ "Q5SSW2-1", "NP_598774.2", "NP_598774.2" ], [ "Q8VI63-1", "NP_082584.1", "NP_082584.1" ], [ "Q8BNN1-1", "NP_084452.2", "NP_084452.2" ], [ "P11416-1", "NP_001170773.1", "NP_001170773.1" ], [ "Q6NSV7-1", "NP_001019683.1", "NP_001019683.1" ], [ "Q8BMD6-1", "NP_766188.3", "NP_766188.3" ], [ "Q8BMD7-1", "NP_001180238.1", "NP_001180238.1" ], [ "Q8BMD5-1", "NP_082262.1", "NP_082262.1" ], [ "Q8BMD2-1", "NP_080219.2", "NP_080219.2" ], [ "Q6PD19-1", "NP_938038.2", "NP_938038.2" ], [ "Q5RJG7-1", "NP_848744.2", "NP_848744.2" ], [ "Q99MU3-1", "NP_001139768.1", "NP_001139768.1" ], [ "Q9R0M5-1", "NP_038889.1", "NP_038889.1" ], [ "Q9R0M3-1", "NP_058607.1", "NP_058607.1" ], [ "Q8BLB7-1", "NP_766375.1", "NP_766375.1" ], [ "O88492-1", "NP_065593.2", "NP_065593.2" ], [ "Q3UIA2-1", "NP_653112.2", "NP_653112.2" ], [ "Q9QY15-1", "NP_038960.2", "NP_038960.2" ], [ "P57080-1", "NP_038946.2", "NP_038946.2" ], [ "Q8C4W3-1", "NP_778189.1", "NP_778189.1" ], [ "Q8VC90-1", "NP_001032851.1", "NP_001032851.1" ], [ "Q8BJ71-1", "NP_765998.1", "NP_765998.1" ], [ "Q8BJ73-1", "NP_001035779.1", "NP_001035779.1" ] ] }, "readme": "Name\n - Mouse UniProtKB Xref RefSeq\n\nVersion\n - 1.0.13\n\nCreated on\n - 2019-03-15T16:23:15.480143\n\nModified on\n - 2019-04-23T18:00:52.405697\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@gwu.edu]\n\nAuthors\n - Maria Martin [martin@ebi.ac.uk], Leyla Garcia [ljgarcia@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n - \n\nUsability Domain\n - The Mouse UniProtKB Xref RefSeq contains mouse [taxid:10090] UniProtKB canonical accessions cross-referenced to RefSeq database accessions/identifiers\n - NCBI RefSeq is a comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.\n - The dataset is derived from 2018-11 UniProt release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProt and GlyGen\n\nDescription Domain\n Keywords\n - protein sequence\n - NCBI RefSeq\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/glygener/glygen-backend-integration/blob/master/pipeline/extractor/extract-from-endpoint.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-10090-mus-musculus-2018-11.nt\n URI: https://data.glygen.org/ln2data/releases/data/v-1.0.13/source/uniprot-proteome-10090-mus-musculus-2018-11.nt\n Name: mouse_protein_idmapping.csv\n URI: https://data.glygen.org/ln2data/releases/data/v-1.0.13/reviewed/mouse_protein_idmapping.csv\n Output Subdomain\n Name: mouse_protein_xref_refseq.csv\n URI: https://data.glygen.org/ln2data/releases/data/v-1.0.13/reviewed/mouse_protein_xref_refseq.csv\n Name: mouse_protein_xref_refseq.stat.csv\n URI: https://data.glygen.org/ln2data/releases/data/v-1.0.13/reviewed/mouse_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: \"4054\"\n Name: \"database_label\"\n Description: \"\"\n Unique Values: \"4052\"\n Name: \"database_id\"\n Description: \"Identifier in the database\"\n Unique Values: \"4052\"", "downloadurl": "/ln2data/releases/data/v-1.0.13/reviewed/mouse_protein_xref_refseq.csv" }