{ "bcoid": "GLY_000390", "title": "Rat Gene Symbols (UniProtKB)", "description": "The Rat Gene Symbols (UniProtKB) dataset contains UniProtKB gene symbols/names for rat [taxid:10116] ...", "filename": "rat_protein_genenames_uniprotkb.csv", "filetype": "csv", "categories": { "species": "Rattus norvegicus", "molecule": "Protein", "tags": "Gene Symbols", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "D3ZB44-1...", "Zfp324..." ], [ "M0R9X4-1...", "Zzz3..." ] ], "headers": [ "uniprotkb_ca...", "gene_symbol_..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "gene_symbol_recommended" }, { "type": "string", "label": "gene_symbol_alternative" }, { "type": "string", "label": "orf_name" } ], [ "D3ZB44-1", "Zfp324", "", "rCG_27445" ], [ "M0R9X4-1", "Zzz3", "", "" ], [ "D3ZB41-1", "Zfp78", "Zfp28", "" ], [ "P09812-1", "Pygm", "", "" ], [ "A0A8I6ASB1-1", "Osgin2", "RGD1306323_predicted", "rCG_54760" ], [ "A0A8I6AX65-1", "Hook1", "Hook1_predicted", "rCG_53392" ], [ "A0A8I6A5H0-1", "Ly9", "", "" ], [ "F1LX07-1", "Slc25a12", "", "" ], [ "Q505J8-1", "Syce2", "Farsa", "" ], [ "Q5RJZ1-1", "Rtel1", "RTEL1", "" ], [ "A0A0G2K1R8-1", "Senp1", "", "" ], [ "P11980-1", "Pkm", "", "" ], [ "Q9WVK3-1", "Pecr", "", "" ], [ "A0A0G2JVG5-1", "LOC102552378", "", "" ], [ "A0A0G2JVG6-1", "Zfp59", "", "" ], [ "P30938-1", "Sstr5", "", "" ], [ "P32301-1", "Glp1r", "", "" ], [ "P33578-1", "Prl8a7", "", "" ], [ "A0A8I6AEC8-1", "Ccdc162", "", "" ], [ "A0A8I6GKT2-1", "Prtfdc1", "", "" ], [ "A0A8I6A2G6-1", "LOC102551431", "", "rCG_36335" ], [ "Q07969-1", "Cd36", "Fat", "" ], [ "Q5XI22-1", "Acat2", "", "" ], [ "Q9QYG8-1", "Uck2", "", "" ], [ "A0A096MJY4-1", "Mef2c", "", "" ], [ "A0A0G2JUK2-1", "Lsm14a", "", "" ], [ "A0A0G2JTB2-1", "Gbe1", "", "" ], [ "A0A8I6A609-1", "Gpc6", "RGD1563063_predicted", "rCG_36982" ], [ "A0A0G2KA92-1", "Chd2", "Chd2_predicted", "rCG_24584" ], [ "A0A096MJY2-1", "Stoml3", "Stoml3_predicted", "rCG_49955" ], [ "A0A8J8XIU8-1", "Rbm39", "", "" ], [ "A0A8J8XIU8-1", "Rbm39", "", "" ], [ "A0A8I5Y4X4-1", "Nub1", "", "" ], [ "Q3KRE8-1", "Tubb2b", "", "" ], [ "Q4QQV3-1", "Fam162a", "", "" ], [ "A0A8I5Y817-1", "ENSRNOG00000069868", "", "" ], [ "P01946-1", "Hba1", "Hba-a1", "" ], [ "P30937-1", "Sstr4", "", "" ], [ "O35152-1", "Bet1l", "Gs15", "" ], [ "P30936-1", "Sstr3", "", "" ], [ "O35158-1", "Cdon", "Cdo", "" ], [ "O70127-1", "Abcb11", "", "" ], [ "F7FI04-1", "Snx10", "", "" ], [ "P98105-1", "Sele", "", "" ], [ "Q9QYH1-1", "Mpp4", "Dlg6", "" ], [ "P02764-1", "Orm1", "", "" ], [ "P02767-1", "Ttr", "Tt", "" ], [ "D4A4W8-1", "Tbxt", "", "" ], [ "D4A4W9-1", "Rpl34-ps1", "", "" ], [ "Q3T1I2-1", "C1qtnf6", "", "" ], [ "D4A4W0-1", "Or5b95", "Olr338", "rCG_48584" ], [ "D4A4W0-1", "Or5b95", "Olr338_predicted", "rCG_48584" ], [ "D4A4W1-1", "Fam174b", "", "" ], [ "D4A4W2-1", "Slc47a2", "", "" ], [ "F7EN52-1", "Cyp46a1", "", "" ], [ "D4A4W4-1", "Ephx3", "Abhd9_predicted", "rCG_29258" ], [ "D4A4W5-1", "Atp10b", "", "" ], [ "D4A4W6-1", "Slirp", "", "" ], [ "D4A4W7-1", "Mgarp", "", "" ], [ "A0A8I5ZK98-1", "Cwc25", "Ccdc49_predicted", "rCG_33263" ], [ "P21932-1", "Adcy3", "", "rCG_61588" ], [ "Q8K4K5-1", "Llgl1", "", "rCG_33798" ], [ "Q4L0E8-1", "Rgs18", "", "rCG_46511" ], [ "G3V6I6-1", "Adipor1", "", "rCG_46155" ], [ "A0A0G2K5E4-1", "Dnaja3", "", "" ], [ "P12749-1", "Rpl26", "", "" ], [ "O08812-1", "Slc7a3", "", "" ], [ "D3ZTT0-1", "Dux4", "", "" ], [ "F1LU71-1", "Auh", "", "" ], [ "P39020-1", "Meox2", "Gax", "" ], [ "P39020-1", "Meox2", "Mox-2", "" ], [ "P39020-1", "Meox2", "Mox2", "" ], [ "Q5XIA9-1", "Klhdc8b", "", "" ], [ "Q0HA29-1", "Nmnat2", "", "" ], [ "A0A0G2K0T8-1", "Fam25a", "", "rCG_42313" ], [ "A0A0G2K0T4-1", "AC105645.5", "", "" ], [ "Q6P6Q9-1", "Micu1", "", "" ], [ "Q63544-1", "Sncg", "", "rCG_42336" ], [ "P83953-1", "Kpna1", "", "" ], [ "P28648-1", "Cd63", "", "" ], [ "Q5U1W2-1", "Prr13", "", "" ], [ "A0A8I6AEL1-1", "ENSRNOG00000066148", "", "" ], [ "A0A8I6AEL0-1", "Map3k5", "", "" ], [ "A0A0G2K130-1", "Tank", "", "" ] ] }, "readme": "Name\n - Rat Gene Symbols (UniProtKB)\n\nVersion\n - v-2.0.3\n\nCreated on\n - 2020-03-15T12:52:59.660127\n\nModified on\n - 2022-09-26T09:05:27.688694\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@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 Rat Gene Symbols (UniProtKB) dataset contains UniProtKB gene symbols/names for rat [taxid:10116] proteins. It contains the recommended gene symbol, alternative gene symbol and ORF gene names assigned by the Gene Name Nomenclature commitees. (for more info - https://www.uniprot.org/help/gene_name). The dataset is derived from 2019-09 UniProtKB release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\n\nDescription Domain\n Keywords\n - protein alternative name\n - UniProtKB\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB gene symbols for protein accessions from the triplestore containing triples from nt file and extracts the alternative protein names into csv dataset file\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: uniprot-proteome-rattus-norvegicus.nt\n URI: /data/shared/glyds/downloads/ebi/2022_05/uniprot-proteome-rattus-norvegicus.nt\n Output Subdomain\n Name: rat_protein_genenames_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.0.3/reviewed/rat_protein_genenames_uniprotkb.csv\n Name: rat_protein_genenames_uniprotkb.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.0.3/reviewed/rat_protein_genenames_uniprotkb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"22713\"\n Name: \"gene_symbol_recommended\"\n Description: \"\"The official gene symbol recommended by the Gene Nomenclature Committees like HGNC\"\n Unique Values: \"23210\"\n Name: \"gene_symbol_alternative\"\n Description: \"The alternative gene symbols to the recommended recommeded gene symbols in UniProtKB\"\n Unique Values: \"13529\"\n Name: \"orf_name\"\n Description: \"\"The orf name as a gene name are the names that are temporarily attributed to an open reading frame (ORF) by a sequencing project. This name can be based on a cosmid numbering system\"\n Unique Values: \"6853\"", "downloadurl": "/ln2data/releases/data/v-2.0.3/reviewed/rat_protein_genenames_uniprotkb.csv" }