{ "bcoid": "GLY_000840", "title": "Dicty Gene Symbols (UniProtKB)", "description": "The Dicty Gene Symbols (UniProtKB) dataset contains UniProtKB gene symbols/names for dicty [taxid:44689] ...", "filename": "dicty_protein_genenames_uniprotkb.csv", "filetype": "csv", "categories": { "species": [ "Dictyostelium discoideum" ], "molecule": [ "Protein" ], "tag": [ "Gene Symbols" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "Q54I96-1...", "..." ], [ "Q54PT0-1...", "..." ] ], "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" } ], [ "Q54I96-1", "", "", "DDB_G0288911" ], [ "Q54PT0-1", "", "", "DDB_G0284351" ], [ "Q54PT1-1", "gdap2", "", "DDB_G0284349" ], [ "Q54PT2-1", "vps4", "", "DDB_G0284347" ], [ "Q54PT3-1", "cyp556A1", "", "DDB_G0284345" ], [ "Q54PT4-1", "", "", "DDB_G0284343" ], [ "Q54PT5-1", "", "", "DDB_G0284443" ], [ "Q54PT6-1", "etfrf1", "lyrm5", "DDB_G0284341" ], [ "Q54PT7-1", "", "", "DDB_G0284339" ], [ "Q54PT8-1", "", "", "DDB_G0284337" ], [ "Q54PT9-1", "mrfA", "rcdK", "DDB_G0284183" ], [ "Q54N46-1", "", "", "DDB_G0285511" ], [ "Q54E35-1", "gacEE", "", "DDB_G0291840" ], [ "Q54E36-1", "xpo2", "", "DDB_G0291838" ], [ "Q54N45-1", "asf1", "", "DDB_G0285513" ], [ "Q54N42-1", "", "", "DDB_G0285519" ], [ "Q54N43-1", "", "", "DDB_G0285517" ], [ "Q553Q9-1", "", "", "DDB_G0275399" ], [ "Q54E33-1", "dnaaf10", "wdr92", "DDB_G0291822" ], [ "Q553Q7-1", "", "", "DDB_G0275337" ], [ "Q553Q6-1", "", "", "DDB_G0275401" ], [ "Q553Q5-1", "", "", "DDB_G0275339" ], [ "Q553Q4-1", "", "", "DDB_G0275341" ], [ "Q553Q3-1", "", "", "DDB_G0275343" ], [ "Q553Q2-1", "", "", "DDB_G0275345" ], [ "Q54N48-1", "clp1", "", "DDB_G0285507" ], [ "Q553Q0-1", "", "", "DDB_G0275427" ], [ "Q86L23-1", "", "", "DDB_G0276845" ], [ "P11872-1", "prtB", "M3R", "DDB_G0271666" ], [ "P11874-1", "rpl7", "", "DDB_G0276441" ], [ "Q9NKX1-1", "grp94", "", "DDB_G0280057" ], [ "Q54IZ4-1", "", "", "DDB_G0288409" ], [ "Q9TGM4-1", "ai4", "", "DDB_G0294080" ], [ "Q550S3-1", "", "", "DDB_G0277031" ], [ "Q8T2Q8-1", "", "", "DDB_G0275137" ], [ "Q550S9-1", "tlcd4b", "tmem56b", "DDB_G0277029" ], [ "Q8T2Q9-1", "", "", "DDB_G0275135" ], [ "Q54CV9-1", "", "", "DDB_G0292668" ], [ "Q54CV8-1", "", "", "DDB_G0292670" ], [ "Q55FU5-1", "", "", "DDB_G0267946" ], [ "Q54CV1-1", "", "", "DDB_G0292684" ], [ "Q54CV0-1", "", "", "DDB_G0292708" ], [ "Q54CV3-1", "", "", "DDB_G0292680" ], [ "Q54CV2-1", "", "", "DDB_G0292682" ], [ "Q54CV5-1", "bub1", "", "DDB_G0292676" ], [ "Q55ES3-1", "", "", "DDB_G0268772" ], [ "Q54CV7-1", "", "", "DDB_G0292672" ], [ "Q54CV6-1", "", "", "DDB_G0292674" ], [ "Q550F6-1", "dcx", "", "DDB_0217917" ], [ "Q550F6-1", "dcx", "", "DDB_G0277115" ], [ "Q54HR3-1", "", "", "DDB_G0289279" ], [ "Q54IZ2-1", "", "", "DDB_G0288413" ], [ "P34045-1", "gpaG", "", "DDB_G0276455" ], [ "P34044-1", "gpaF", "", "DDB_G0283151" ], [ "Q54HR1-1", "", "", "DDB_G0289285" ], [ "P34043-1", "gpaE", "", "DDB_G0286185" ], [ "P34042-1", "gpaD", "", "DDB_G0285425" ], [ "Q55GG1-1", "cpnD", "", "DDB_G0267688" ], [ "Q55ES2-1", "", "", "DDB_G0268984" ], [ "Q557I1-1", "nfyc-1", "", "DDB_G0273479" ], [ "Q557I1-1", "nfyc-2", "", "DDB_G0273545" ], [ "Q54HR7-1", "", "", "DDB_G0289269" ], [ "Q555G3-1", "", "", "DDB_G0274891" ], [ "Q555G2-1", "", "", "DDB_G0274893" ], [ "Q555G0-1", "", "", "DDB_G0274897" ], [ "Q55GG3-1", "", "", "DDB_G0268498" ], [ "Q555G5-1", "", "", "DDB_G0274673" ], [ "Q555G4-1", "", "", "DDB_G0274671" ], [ "Q555G9-1", "cdc73", "", "DDB_G0274885" ], [ "Q54HR5-1", "", "", "DDB_G0289273" ], [ "C7G013-1", "", "", "DDB_G0295731" ], [ "P36411-1", "rab7A", "rab7", "DDB_G0269236" ], [ "Q55ES1-1", "", "", "DDB_G0269080" ], [ "P36412-1", "rab11A", "rab11", "DDB_G0269238" ], [ "P36413-1", "pdhC", "dlaA", "DDB_G0277847" ], [ "Q76P13-1", "", "", "DDB_G0277153" ], [ "Q55GG8-1", "rpb9", "", "DDB_G0268306" ], [ "Q55FY1-1", "", "", "DDB_G0268384" ], [ "Q6S002-1", "kif10", "", "DDB_G0293198" ], [ "Q6S003-1", "kif8", "K8", "DDB_G0284471" ], [ "Q6S003-1", "kif8", "ksnH", "DDB_G0284471" ], [ "Q6S000-1", "kif12", "", "DDB_G0268258" ], [ "Q6S001-1", "kif11", "", "DDB_G0291039" ], [ "Q54YH9-1", "", "", "DDB_G0278229" ] ] }, "readme": "Name\n - Dicty Gene Symbols (UniProtKB)\n\nVersion\n - v-2.3.1\n\nCreated on\n - \n\nModified on\n - 2024-01-09T04:36:54\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu]\n\nAuthors\n - \n\nChecksum\n - \n\nUsability Domain\n - The Dicty Gene Symbols (UniProtKB) dataset contains UniProtKB gene symbols/names for dicty [taxid:44689] 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 ],\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-dictyostelium-discoideum.nt\n URI: https:/data.glygen.org/ln2downloads/ebi/2023_10_30/uniprot-proteome-dictyostelium-discoideum.nt\n Output Subdomain\n Name: dicty_protein_genenames_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.3.1/reviewed/dicty_protein_genenames_uniprotkb.csv\n Name: dicty_protein_genenames_uniprotkb.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.3.1/reviewed/dicty_protein_genenames_uniprotkb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"12724\"\n Name: \"gene_symbol_recommended\"\n Description: \"\"The official gene symbol recommended by the Gene Nomenclature Committees like HGNC\"\n Unique Values: \"3923\"\n Name: \"gene_symbol_alternative\"\n Description: \"The alternative gene symbols to the recommended recommeded gene symbols in UniProtKB\"\n Unique Values: \"934\"\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: \"13084\"", "downloadurl": "/ln2data/releases/data/v-2.3.1/reviewed/dicty_protein_genenames_uniprotkb.csv" }