{ "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": { "species": "Mus Musculus", "molecule": "Protein", "tags": "Refseq cross-references", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q8BH24-1...", "NP_598608.2..." ], [ "Q8BH27-1...", "NP_766282.1..." ] ], "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" } ], [ "Q8BH24-1", "NP_598608.2", "" ], [ "Q8BH27-1", "NP_766282.1", "" ], [ "Q8VF69-1", "NP_666640.1", "" ], [ "Q8VF63-1", "NP_666530.1", "" ], [ "Q8VF62-1", "NP_666529.1", "" ], [ "Q8VF60-1", "NP_666527.1", "" ], [ "Q8VF66-1", "NP_666637.1", "" ], [ "Q8VF65-1", "NP_666636.1", "" ], [ "Q8VF64-1", "NP_666531.1", "" ], [ "E9Q3P4-1", "NP_001074832.2", "" ], [ "Q07968-1", "NP_112441.2", "" ], [ "A5H0M4-1", "NP_081894.1", "" ], [ "Q9CXG3-1", "NP_080417.2", "" ], [ "B1AQ85-1", "NP_081083.2", "" ], [ "O35153-1", "NP_061212.3", "" ], [ "P03893-1", "NP_904329.1", "" ], [ "Q9QYH9-1", "NP_062291.1", "" ], [ "Q9QYH6-1", "NP_062765.1", "" ], [ "Q3SXJ3-1", "NP_666672.2", "" ], [ "Q08AU9-1", "NP_001156945.1", "" ], [ "Q61409-1", "NP_035185.2", "" ], [ "A2AVK5-1", "NP_667184.2", "" ], [ "Q80YU0-1", "NP_899004.1", "" ], [ "Q61400-1", "NP_031701.3", "" ], [ "Q61406-1", "NP_056595.1", "" ], [ "Q5SRT8-1", "NP_001038995.1", "" ], [ "P70414-1", "NP_035536.2", "" ], [ "P70419-1", "NP_056551.2", "" ], [ "Q9EP78-1", "NP_068361.1", "" ], [ "Q9EP79-1", "NP_444452.1", "" ], [ "Q3URK3-1", "NP_081660.1", "" ], [ "Q9EP72-1", "NP_598510.1", "" ], [ "Q9EP73-1", "NP_068693.1", "" ], [ "Q3URK1-1", "NP_001028357.1", "" ], [ "S4R213-1", "NP_001230191.1", "" ], [ "Q8R349-1", "NP_081552.2", "" ], [ "Q8R344-1", "NP_082588.2", "" ], [ "O08911-1", "NP_038899.1", "" ], [ "O08914-1", "NP_034303.3", "" ], [ "O08918-1", "NP_031661.3", "" ], [ "Q80WC1-1", "NP_796159.3", "" ], [ "Q80WC7-1", "NP_835456.1", "" ], [ "Q91ZK0-1", "NP_694794.1", "" ], [ "Q9D4U4-1", "NP_083505.1", "" ], [ "A0A3Q4EGJ1-1", "XP_006540519.1", "" ], [ "Q4VC33-1", "NP_067475.2", "" ], [ "Q66GT5-1", "NP_079852.1", "" ], [ "P50429-1", "NP_033842.3", "" ], [ "Q99LV7-1", "NP_077784.2", "" ], [ "Q4G5Y1-1", "NP_081393.2", "" ], [ "P50427-1", "NP_033319.1", "" ], [ "P59708-1", "NP_079599.1", "" ], [ "F8VQK3-1", "NP_001028494.1", "" ], [ "Q9R1N9-1", "NP_031757.1", "" ], [ "A2AT96-1", "NP_666977.2", "" ], [ "Q3V3Q4-1", "NP_001156410.1", "" ], [ "Q7M729-1", "NP_001013408.1", "" ], [ "Q3V3Q7-1", "NP_001278374.1", "" ], [ "Q7M724-1", "NP_996899.1", "" ], [ "Q7M725-1", "NP_954605.1", "" ], [ "Q7M720-1", "NP_996907.1", "" ], [ "Q7M721-1", "NP_996906.1", "" ], [ "Q7M722-1", "NP_996902.1", "" ], [ "Q7M723-1", "NP_996894.1", "" ], [ "P10649-1", "NP_034488.1", "" ], [ "Q9D515-1", "NP_083457.1", "" ], [ "Q9D518-1", "NP_083731.2", "" ], [ "Q9D519-1", "NP_001243188.1", "" ], [ "Q8K2M0-1", "NP_077139.2", "" ], [ "Q8K2M3-1", "NP_081599.2", "" ], [ "P21661-1", "NP_032818.1", "" ], [ "O88662-1", "NP_031955.2", "" ], [ "Q9DB00-1", "XP_017175282.1", "" ], [ "Q9DB05-1", "NP_080174.1", "" ], [ "Q6P3D7-1", "NP_035591.3", "" ], [ "Q6P3D0-1", "NP_083661.2", "" ], [ "Q8VC03-1", "NP_659121.1", "" ], [ "P48076-1", "NP_032894.2", "" ], [ "Q8BGW3-1", "NP_542372.2", "" ], [ "Q497P9-1", "NP_001029275.1", "" ], [ "Q8BGW4-1", "NP_780748.1", "" ], [ "Q8BGW6-1", "NP_848864.1", "" ], [ "Q8BGW9-1", "NP_001001444.1", "" ], [ "B2RUK9-1", "NP_001001186.3", "" ] ] }, "readme": "Name\n - Mouse UniProtKB Xref RefSeq\n\nVersion\n - 1.4.5\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], 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 Mouse UniprotKB Xref RefSeq contains mouse [taxid:10090] 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-10090-mus-musculus-2019-05.nt\n URI: https://data.glygen.org/ln2wwwdata/source/uniprot-proteome-10090-mus-musculus-2019-05.nt\n Output Subdomain\n Name: mouse_protein_xref_refseq.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_xref_refseq.csv\n Name: mouse_protein_xref_refseq.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/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: \"15088\"\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: \"15086\"", "downloadurl": "/ln2data/releases/data/v-1.4.5/reviewed/mouse_protein_xref_refseq.csv" }