{ "bcoid": "GLY_000389", "title": "Rat Gene Symbols (NCBI RefSeq)", "description": "The Rat Gene Symbols (NCBI RefSeq) dataset contains rat [taxid:10116] gene symbols/names (primary gene ...", "filename": "rat_protein_genenames_refseq.csv", "filetype": "csv", "categories": { "species": [ "Rattus norvegicus" ], "molecule": [ "Protein" ], "tags": [ "Protein Information" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "D3ZXG1-1...", "XP_008757432..." ], [ "A0A8I5ZT71-1...", "XP_006246201..." ] ], "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" } ], [ "D3ZXG1-1", "XP_008757432", "LOC102553760" ], [ "A0A8I5ZT71-1", "XP_006246201", "Pwwp2a" ], [ "A0A8I5ZT71-1", "XP_006246201", "RGD1305891" ], [ "P60889-1", "XP_006242082", "Cbx7" ], [ "Q6P6T4-1", "NP_620276", "Eml2" ], [ "Q6P6T4-1", "NP_620276", "Emap; Emap-2; Eml1" ], [ "P19360-1", "NP_113691", "Ascl2" ], [ "P47727-1", "NP_062043", "Cbr1" ], [ "P47727-1", "NP_062043", "Cbr; PG-9-KR" ], [ "Q9QX67-1", "NP_071971", "Dap" ], [ "Q9QX67-1", "NP_071971", "Rap7a" ], [ "Q6P9Z7-1", "NP_445990", "Laptm5" ], [ "Q6P9Z7-1", "NP_445990", "gcd-10" ], [ "Q68FR6-1", "NP_001004223", "Eef1g" ], [ "A0A0G2K6K0-1", "NP_001258284", "Hoxa13" ], [ "A0A0G2K6K0-1", "NP_001258284", "RGD1562483" ], [ "D3ZAF6-1", "NP_001258046", "Atp5mf" ], [ "D3ZAF6-1", "NP_001258046", "Atp5j2" ], [ "P70502-1", "NP_110464", "Slco1a3" ], [ "P70502-1", "NP_110464", "OAT-K1; OAT-K2; rOAT-K1; rOAT-K11; rOAT-K13; rOAT-K14; rOAT-K2; rOAT-K3; rOAT-K5; rOAT-K6; rOAT-K7; rOAT-K8; rOAT-K9; Slc21a4" ], [ "D4A209-1", "NP_001000964", "Or8c9" ], [ "D4A209-1", "NP_001000964", "Olr1228" ], [ "B0BN13-1", "NP_001107263", "Insyn1" ], [ "B0BN13-1", "NP_001107263", "RGD1562618" ], [ "Q63356-1", "NP_775124", "Myo1e" ], [ "Q63356-1", "NP_775124", "Myr3; MYR5" ], [ "M0RCN2-1", "NP_001178732", "Tnfsf14" ], [ "M0RCN2-1", "NP_001178732", "Tnlg1d" ], [ "A0A8I6ANS1-1", "NP_001100168", "H6pd" ], [ "A0A8I6ANS1-1", "NP_001100168", "H6pdh" ], [ "Q5I2P1-1", "NP_001009964", "Tbx5" ], [ "Q78PB6-1", "NP_579854", "Ndel1" ], [ "Q78PB6-1", "NP_579854", "EOPA; NUDE2; Nudel" ], [ "Q80YE2-1", "NP_851598", "Tp53inp1" ], [ "Q80YE2-1", "NP_851598", "Stinp; Trp53inp1" ], [ "Q3ZAU7-1", "NP_001028233", "Cenpl" ], [ "Q3ZAU7-1", "NP_001028233", "RGD1311868" ], [ "B1H275-1", "NP_001129215", "Bud23" ], [ "B1H275-1", "NP_001129215", "Wbscr22" ], [ "M0R4T0-1", "NP_001000659", "Or5w17" ], [ "M0R4T0-1", "NP_001000659", "Olr587" ], [ "Q63562-1", "NP_446299", "Map3k8" ], [ "Q63562-1", "NP_446299", "D17TPL2; Tpl-2; Tpl2" ], [ "Q498N0-1", "NP_001032288", "LOC367830" ], [ "A0A8I5ZMB0-1", "NP_001094125", "Nacad" ], [ "P63036-1", "NP_075223", "Dnaja1" ], [ "P63036-1", "NP_075223", "Hsj2" ], [ "Q62991-1", "NP_062237", "Scfd1" ], [ "Q62991-1", "NP_062237", "RA410; rSly1; Sly1" ], [ "P19836-1", "NP_511177", "Pcyt1a" ], [ "P19836-1", "NP_511177", "CCT-alpha; CTP" ], [ "P0C627-1", "XP_017448819", "Ubxn2b" ], [ "P0C627-1", "XP_017448819", "RGD1308557" ], [ "P10631-1", "NP_001029252", "Pyy" ], [ "P10631-1", "NP_001029252", "GHYY; peptide-YY; RATGHYY; Yy" ], [ "Q5U2V8-1", "NP_001008356", "Emc3" ], [ "Q5U2V8-1", "NP_001008356", "Pob; RGD1311566; Tmem111" ], [ "Q7TN45-1", "NP_001002287", "Mrgprb4" ], [ "Q7TN45-1", "NP_001002287", "MrgB4" ], [ "Q6AYD0-1", "NP_001020326", "Lrrc17" ], [ "D3ZZR7-1", "NP_001102792", "Ctag2" ], [ "D3ZZR7-1", "NP_001102792", "RGD1561702" ], [ "Q4V8J0-1", "NP_036657", "Cgm4" ], [ "Q4V8J0-1", "NP_036657", "Cea; CEA4; CEA5; Cear; CGM4AA; Psg16" ], [ "D3ZIN1-1", "NP_001100730", "Slc39a2" ], [ "Q6AXT8-1", "NP_001011986", "Sf3a2" ], [ "F1LVW5-1", "NP_001101965", "Relt" ], [ "F1LVW5-1", "NP_001101965", "Tnfrsf19l" ], [ "D3ZY38-1", "NP_001102537", "Fam222a" ], [ "D3ZY38-1", "NP_001102537", "RGD1565883" ], [ "Q5FVR3-1", "NP_001013938", "Cd302" ], [ "Q5FVR3-1", "NP_001013938", "RGD1307606" ], [ "Q99PP0-1", "NP_113904", "Ccn4" ], [ "Q99PP0-1", "NP_113904", "Wisp1" ], [ "Q924C3-1", "NP_445987", "Enpp1" ], [ "Q924C3-1", "NP_445987", "Npps; Pc1" ], [ "D4AE75-1", "XP_006241605", "Pop1" ], [ "D3ZEF2-1", "NP_001103613", "Cldn22" ], [ "A0A8I6AJN4-1", "NP_001100287", "Bcl9l" ], [ "Q5FVQ7-1", "NP_001012350", "Fam174a" ], [ "Q5FVQ7-1", "NP_001012350", "Fam174; RGD1309973; Tmem157" ], [ "D4A131-1", "NP_001102224", "Mrpl4" ], [ "G3V7N6-1", "NP_001300869", "Mboat7l1" ], [ "A0A8I6ANZ5-1", "NP_001099602", "Loxhd1" ] ] }, "readme": "Name\n - Rat Gene Symbols (NCBI RefSeq)\n\nVersion\n - v-2.1.1\n\nCreated on\n - 2020-03-15T12:52:59.660127\n\nModified on\n - 2022-09-26T09:05:27.653481\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 - Not Applicable []\n\nChecksum\n - \n\nUsability Domain\n - The Rat Gene Symbols (NCBI RefSeq) dataset contains rat [taxid:10116] 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. If you use this dataset please provide proper attribution to NCBI RefSeq and GlyGen\n\nDescription Domain\n Keywords\n - protein information\n - protein length\n - NCBI RefSeq\n - protein summary\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/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: rat_protein_xref_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.1.1/reviewed/rat_protein_xref_refseq.csv\n Output Subdomain\n Name: rat_protein_genenames_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.1.1/reviewed/rat_protein_genenames_refseq.csv\n Name: rat_protein_genenames_refseq.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.1.1/reviewed/rat_protein_genenames_refseq.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"14316\"\n Name: \"refseq_ac\"\n Description: \"Accession in the NCBI RefSeq database\"\n Unique Values: \"14316\"\n Name: \"refseq_gene_name\"\n Description: \"The gene name/symbol in NCBI RefSeq database.\"\n Unique Values: \"22796\"", "downloadurl": "/ln2data/releases/data/v-2.1.1/reviewed/rat_protein_genenames_refseq.csv" }