{ "bcoid": "GLY_000388", "title": "Mouse Gene Symbols (NCBI RefSeq)", "description": "The Mouse Gene Symbols (NCBI RefSeq) dataset contains mouse [taxid:10090] gene symbols/names (primary ...", "filename": "mouse_protein_genenames_refseq.csv", "filetype": "csv", "categories": { "species": "Mus musculus", "molecule": "Protein", "tags": "Protein Gene Symbols", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "P03888-1...", "NP_904328.1..." ], [ "P03893-1...", "NP_904329.1..." ] ], "headers": [ "uniprotkb_ca...", "refseq_ac..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "refseq_ac" }, { "type": "string", "label": "refseq_gene_name" } ], [ "P03888-1", "NP_904328.1", "ND1" ], [ "P03893-1", "NP_904329.1", "ND2" ], [ "P00397-1", "NP_904330.1", "COX1" ], [ "P00397-1", "NP_904330.1", "CoxI" ], [ "P00405-1", "NP_904331.1", "COX2" ], [ "P03930-1", "NP_904332.1", "ATP8" ], [ "P00848-1", "NP_904333.1", "ATP6" ], [ "P00416-1", "NP_904334.1", "COX3" ], [ "P03899-1", "NP_904335.1", "ND3" ], [ "P03903-1", "NP_904336.1", "ND4L" ], [ "P03911-1", "NP_904337.1", "ND4" ], [ "P03921-1", "NP_904338.1", "ND5" ], [ "P03925-1", "NP_904339.1", "ND6" ], [ "P00158-1", "NP_904340.1", "CYTB" ], [ "Q3U687-1", "NP_444447.1", "Ifit1bl2" ], [ "Q3U687-1", "NP_444447.1", "2010002M12Rik; AW412491; Ifit1b" ], [ "A2AE21-1", "NP_899008.2", "Zfp300" ], [ "A2AE21-1", "NP_899008.2", "D930016N04Rik" ], [ "Q9D9N2-1", "NP_001075140.1", "Cldn34b2" ], [ "Q9D9N2-1", "NP_001075140.1", "1700042B14Rik" ], [ "Q9DCP4-1", "NP_001153110.1", "Them7" ], [ "Q9DCP4-1", "NP_001153110.1", "0610012H03Rik" ], [ "A2ANY3-1", "NP_001162062.1", "2010106E10Rik" ], [ "Q3V0S8-1", "NP_001155900.1", "1700012B07Rik" ], [ "Q3V0S8-1", "NP_001155900.1", "1700069D21Rik" ], [ "Q99N18-1", "NP_598888.1", "Cyp4f15" ], [ "Q99N18-1", "NP_598888.1", "AI787289; Cyp4f-15" ], [ "Q8BNV8-1", "NP_001107028.1", "A530064D06Rik" ], [ "Q8BNV8-1", "NP_001107028.1", "pdctrem; Trem4" ], [ "Q3UH45-1", "NP_001074526.1", "Tecpr2" ], [ "Q3UH45-1", "NP_001074526.1", "4930573I19Rik; AI604920; mKIAA0297" ], [ "E9Q492-1", "NP_001156391.1", "Pgbd1" ], [ "E9Q492-1", "NP_001156391.1", "4921509E05Rik" ], [ "Q3UTQ6-1", "NP_001039018.1", "Zfp868" ], [ "Q3UTQ6-1", "NP_001039018.1", "AI449175; AW108241; C530032E20; mszf62" ], [ "E9Q4M0-1", "NP_766202.3", "Tmem44" ], [ "E9Q4M0-1", "NP_766202.3", "1700007N03Rik; 9330161C17Rik; B230220N21" ], [ "Q80ZX2-1", "NP_001139352.1", "Zfp790" ], [ "Q80ZX2-1", "NP_001139352.1", "6330581L23Rik" ], [ "Q8VI97-1", "NP_001153406.1", "Oas1h" ], [ "Q8BY68-1", "NP_001116067.1", "P2ry10b" ], [ "Q8BY68-1", "NP_001116067.1", "A630033H20Rik; AI662791; P2ry10" ], [ "Q8C7I4-1", "NP_001162131.1", "Apol9b" ], [ "Q8C7I4-1", "NP_001162131.1", "2310016F22Rik" ], [ "Q9D5W6-1", "NP_001157705.1", "Slco6d1" ], [ "Q9D5W6-1", "NP_001157705.1", "4921511I05Rik" ], [ "J3QML9-1", "NP_001241673.1", "E030030I06Rik" ], [ "Q9D1U5-1", "NP_001294953.1", "Cutal" ], [ "Q9D1U5-1", "NP_001294953.1", "D730039F16Rik" ], [ "Q6S9I3-1", "NP_958763.1", "Kng2" ], [ "E0CX23-1", "NP_001289282.1", "Umad1" ], [ "E0CX23-1", "NP_001289282.1", "Gm16039" ], [ "Q6PFE7-1", "NP_067411.1", "Tmeff1" ], [ "Q6PFE7-1", "NP_067411.1", "A830033E11; M7365; TR-1; Tr1" ], [ "Q14BI1-1", "NP_001103710.1", "Slc24a2" ], [ "Q14BI1-1", "NP_001103710.1", "2810021B17Rik; 6330417K15Rik; AI847460; Nckx2" ], [ "E9Q9Y3-1", "NP_001161841.1", "Ccdc7b" ], [ "E9Q9Y3-1", "NP_001161841.1", "1700008F21Rik" ], [ "A2AJB9-1", "NP_001263377.1", "Lcn6" ], [ "A2AJB9-1", "NP_001263377.1", "9230101D24Rik" ], [ "Q9CQ47-1", "NP_080009.1", "Spertl" ], [ "Q9CQ47-1", "NP_080009.1", "4921530L21Rik" ], [ "Q05AC5-1", "NP_080524.2", "A26c3" ], [ "Q05AC5-1", "NP_080524.2", "4930430A15Rik" ], [ "Q24JP3-1", "NP_001119518.1", "Fam178b" ], [ "Q24JP3-1", "NP_001119518.1", "1700024G10Rik; Gm990" ], [ "E9Q3H6-1", "NP_001074509.1", "Coq10a" ], [ "E9Q3H6-1", "NP_001074509.1", "Gm1" ], [ "B8QI36-1", "NP_001138327.1", "Ppfia4" ], [ "B8QI36-1", "NP_001138327.1", "100042382; 1110008G13Rik; AI448359; AI852265; C81506; Gm3812" ], [ "E9Q3R6-1", "NP_001158047.1", "Zfp169" ], [ "E9Q3R6-1", "NP_001158047.1", "1700025J14Rik; 4930429A13Rik; BE688704" ], [ "Q9JJT2-1", "NP_001129535.1", "Gfra4" ], [ "Q9JJT2-1", "NP_001129535.1", "AW060733; G630015H18Rik" ], [ "Q8BKP2-1", "NP_001276830.1", "Zfp189" ], [ "Q8BKP2-1", "NP_001276830.1", "BB131811; C430015I23Rik" ], [ "Q8VCG1-1", "NP_001153118.1", "Dut" ], [ "Q8VCG1-1", "NP_001153118.1", "5031412I06Rik; 5133400F09Rik; D2Bwg0749e; Dutp; dUTPase" ], [ "A2A590-1", "NP_081433.2", "Krtap1-5" ], [ "A2A590-1", "NP_081433.2", "2310043L02Rik; AI592983" ], [ "E9PUA5-1", "NP_444403.2", "Kifc5b" ], [ "E9PUA5-1", "NP_444403.2", "Hset; Kifc5a; KNSL2" ], [ "J3QNX6-1", "NP_001177947.1", "Krtap22-2" ], [ "J3QNX6-1", "NP_001177947.1", "1110032D16Rik" ] ] }, "readme": "Name\n - Mouse Gene Symbols (NCBI RefSeq)\n\nVersion\n - 1.8.25\n\nCreated on\n - 2020-03-15T12:50:40.430263\n\nModified on\n - 2020-04-03T21:26:42.535344\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@gwu.edu]\n\nAuthors\n - \n\nChecksum\n - \n\nUsability Domain\n - The Mouse Gene Symbols (NCBI RefSeq) dataset contains mouse [taxid:10090] gene symbols/names (primary gene name and gene synonyms) from NCBI RefSeq database. The dataset is derived from NCBI RefSeq Release 96, September 9, 2019. The dataset is derived from NCBI RefSeq Release 96, September 9, 2019. If you use this dataset please provide proper attribution to NCBI RefSeq and GlyGen\n\nDescription Domain\n Keywords\n - protein gene symbols\n - protein gene names\n - NCBI RefSeq\n\n Pipeline Steps\n - Step-1: The script parses the NCBI RefSeq gpff files to extract the gene symbols/names and then maps the NCBI RefSeq accesion to the UniProtKB Canonical accessions\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: refseq_protein_all_10090.gpff\n URI: https://data.glygen.org/ln2wwwdata/source/refseq_protein_all_10090.gpff\n Name: mouse_protein_xref_refseq.csv\n URI: https://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_xref_refseq.csv\n Output Subdomain\n Name: mouse_protein_genenames_refseq.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/mouse_genenames_refseq.csv\n Name: mouse_protein_genenames_refseq.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_genenames_refseq.stat.csv\n\nFields\n Name: \"src_xref_key\"\n Description: \"Source Xref key\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"119\"\n Name: \"title\"\n Description: \"Title of the published article in the journal\"\n Unique Values: \"119\"\n Name: \"src_xref_id\"\n Description: \"Source X-ref ID\"\n Unique Values: \"120\"\n Name: \"journal_name\"\n Description: \"The name of the journal in which the article is published\"\n Unique Values: \"49\"\n Name: \"authors\"\n Description: \"NA\"\n Unique Values: \"118\"\n Name: \"publication_date\"\n Description: \"Contains the full date on which the issue of the journal was published. Sourced from MEDLINE/PubMed data element(fields) description.\"\n Unique Values: \"117\"\n Name: \"glytoucan_ac\"\n Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n Unique Values: \"115\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-1.8.25/reviewed/mouse_protein_genenames_refseq.csv" }