{ "bcoid": "GLY_000753", "title": "Yeast Gene Names (UniProtKB)", "description": "The Yeast Gene Names (UniProtKB) dataset contains UniProtKB gene Names/names for yeast [taxid:559292] ...", "filename": "yeast_protein_genenames_uniprotkb.csv", "filetype": "csv", "categories": { "species": [ "Saccharomyces cerevisiae S288C" ], "molecule": [ "Protein" ], "tag": [ "Gene Names" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "P30619-1...", "SEC1..." ], [ "P39970-1...", "ACA1..." ] ], "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" } ], [ "P30619-1", "SEC1", "", "YD8358.18C" ], [ "P39970-1", "ACA1", "", "" ], [ "P39976-1", "DLD3", "", "" ], [ "P39975-1", "RMD6", "", "" ], [ "P39979-1", "HPA3", "", "" ], [ "P25379-1", "CHA1", "", "YCL64C" ], [ "P25378-1", "RHB1", "RSG1", "YCR27C" ], [ "P17121-1", "SAC7", "", "" ], [ "P25374-1", "NFS1", "SPL1", "" ], [ "P17123-1", "SPO12", "", "" ], [ "P17122-1", "SPO16", "", "" ], [ "P25371-1", "ADP1", "", "YCR105" ], [ "P25371-1", "ADP1", "", "YCR11C" ], [ "P25370-1", "GFD2", "", "YCL187" ], [ "P25370-1", "GFD2", "", "YCL36W" ], [ "P25373-1", "GRX1", "", "YCL35C" ], [ "P25372-1", "TRX3", "", "YCR83W" ], [ "Q03048-1", "COF1", "", "L0596" ], [ "Q06567-1", "MCP2", "MRX13", "L9672.2" ], [ "Q06563-1", "SYM1", "", "" ], [ "Q00539-1", "NAM8", "MRE2", "" ], [ "Q00539-1", "NAM8", "MUD15", "" ], [ "Q07748-1", "THI13", "", "" ], [ "Q07963-1", "UBR2", "", "" ], [ "Q00246-1", "RHO4", "", "" ], [ "Q00245-1", "RHO3", "", "" ], [ "P40422-1", "RPC10", "RPB12", "YHR143BW" ], [ "P48566-1", "MSB3", "GYP3", "N0470" ], [ "P18494-1", "GLN3", "", "" ], [ "P18496-1", "ATP10", "", "L8084.8" ], [ "P48568-1", "", "", "D1281" ], [ "Q08749-1", "TIM18", "", "" ], [ "Q08746-1", "RRS1", "", "" ], [ "Q08747-1", "UAF30", "", "" ], [ "Q08745-1", "RPS10A", "", "" ], [ "Q08742-1", "RDL2", "AIM42", "" ], [ "Q08742-1", "RDL2", "FMP31", "" ], [ "P32915-1", "SEC61", "", "L3502.5" ], [ "P32914-1", "SPT4", "", "" ], [ "P32917-1", "STE5", "NUL3", "YD8557.12" ], [ "P32916-1", "SRP101", "", "D9819.3" ], [ "P32911-1", "SUI1", "RFR1", "N0905" ], [ "P32910-1", "RPC34", "", "N2031" ], [ "P32913-1", "VPS17", "PEP21", "O3314" ], [ "P32913-1", "VPS17", "VPT3", "O3314" ], [ "P32913-1", "VPS17", "PEP21", "YOR3314W" ], [ "P32913-1", "VPS17", "VPT3", "YOR3314W" ], [ "P32912-1", "VAM7", "", "" ], [ "Q04438-1", "SPG4", "", "YM9718.06" ], [ "Q04439-1", "MYO5", "", "YM9718.08" ], [ "Q04430-1", "CAB1", "", "" ], [ "Q04431-1", "KRE28", "", "" ], [ "Q04432-1", "HSP31", "", "D9719.36" ], [ "Q04433-1", "FIT1", "", "D9719.37" ], [ "Q04436-1", "", "", "YM9718.02C" ], [ "Q04437-1", "YKU80", "HDF2", "YM9718.05C" ], [ "P00546-1", "CDC28", "CDK1", "YBR1211" ], [ "P00546-1", "CDC28", "HSL5", "YBR1211" ], [ "P00546-1", "CDC28", "SRM5", "YBR1211" ], [ "P04385-1", "GAL1", "", "YBR0302" ], [ "P00549-1", "CDC19", "PYK1", "" ], [ "P04386-1", "GAL4", "", "" ], [ "P25375-1", "PRD1", "", "YCL57W" ], [ "Q08562-1", "ULS1", "RIS1", "" ], [ "Q08562-1", "ULS1", "DIS1", "" ], [ "Q08562-1", "ULS1", "TID4", "" ], [ "Q08561-1", "IES4", "", "" ], [ "P25377-1", "ADH7", "", "" ], [ "P25376-1", "AGP1", "", "YCL25C" ], [ "P09007-1", "SRD1", "", "YCR18C" ], [ "P04037-1", "COX4", "", "G1362" ], [ "P04039-1", "COX8", "", "L8084.14" ], [ "Q05779-1", "COQ9", "", "" ], [ "P00724-1", "SUC2", "", "" ], [ "P00729-1", "PRC1", "", "" ], [ "Q06568-1", "NDL1", "", "" ], [ "P32786-1", "RRN6", "", "YBL0311" ], [ "P32786-1", "RRN6", "", "YBL0312" ], [ "P36094-1", "SPC42", "", "YKL255" ], [ "Q02875-1", "SYH1", "", "" ], [ "P23542-1", "AAT2", "ASP5", "L1746" ], [ "Q05473-1", "MRX8", "", "" ], [ "Q05471-1", "SWR1", "", "D9651.6" ], [ "Q3E7A9-1", "CMC4", "", "" ] ] }, "readme": "Name\n - Yeast Gene Names (UniProtKB)\n\nVersion\n - v-2.4.1\n\nCreated on\n - \n\nModified on\n - 2023-09-11T19:04:29\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], Luke Johnson [luke.johnson@email.gwu.edu], Urnisha Bhuiyan [sbhuiyan28@email.gwu.edu], Cyrus Au-Yeung [cyruschauyeung@gwu.edu], Jingyue Wu [jingyue.wu@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 Yeast Gene Names (UniProtKB) dataset contains UniProtKB gene Names/names for yeast [taxid:559292] 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). 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 Names 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-saccharomyces-cerevisiae.nt\n URI: https:/data.glygen.org/ln2downloads/ebi/2024_02_13/uniprot-proteome-saccharomyces-cerevisiae.nt\n Output Subdomain\n Name: yeast_protein_genenames_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/yeast_protein_genenames_uniprotkb.csv\n Name: yeast_protein_genenames_uniprotkb.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/yeast_protein_genenames_uniprotkb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"5545\"\n Name: \"gene_symbol_recommended\"\n Description: \"\"The official gene symbol recommended by the Gene Nomenclature Committees like HGNC\"\n Unique Values: \"5209\"\n Name: \"gene_symbol_alternative\"\n Description: \"The alternative gene symbols to the recommended recommeded gene symbols in UniProtKB\"\n Unique Values: \"2617\"\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: \"3815\"", "downloadurl": "/ln2data/releases/data/v-2.4.1/reviewed/yeast_protein_genenames_uniprotkb.csv" }