{ "bcoid": "GLY_000752", "title": "Yeast Gene Names (NCBI RefSeq)", "description": "The Yeast Gene Names (NCBI RefSeq) dataset contains yeast [taxid:559292] gene Names/names (primary gene ...", "filename": "yeast_protein_genenames_refseq.csv", "filetype": "csv", "categories": { "species": [ "Saccharomyces cerevisiae S288C" ], "molecule": [ "Protein" ], "tag": [ "Protein Information" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "P00401-1...", "NP_009305..." ], [ "P00401-1...", "NP_009305..." ] ], "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" } ], [ "P00401-1", "NP_009305", "COX1" ], [ "P00401-1", "NP_009305", "OXI3" ], [ "Q9ZZX1-1", "NP_009306", "AI5_ALPHA" ], [ "P03878-1", "NP_009307", "AI4" ], [ "P03877-1", "NP_009308", "AI3" ], [ "P03876-1", "NP_009309", "AI2" ], [ "P03875-1", "NP_009310", "AI1" ], [ "Q9ZZX0-1", "NP_009311", "AI5_BETA" ], [ "P00856-1", "NP_009312", "ATP8" ], [ "P00856-1", "NP_009312", "AAP1" ], [ "P00854-1", "NP_009313", "ATP6" ], [ "P00854-1", "NP_009313", "OLI2; OLI4; PHO1" ], [ "P00163-1", "NP_009315", "COB" ], [ "P00163-1", "NP_009315", "COB1; CYTB" ], [ "P03879-1", "NP_009316", "BI4" ], [ "Q9ZZW7-1", "NP_009317", "BI3" ], [ "P03873-1", "NP_009318", "BI2" ], [ "P61829-1", "NP_009319", "OLI1" ], [ "P61829-1", "NP_009319", "ATP9; OLI3" ], [ "P02381-1", "NP_009320", "VAR1" ], [ "P02381-1", "NP_009320", "uS3m" ], [ "P03882-1", "NP_009324", "SCEI" ], [ "P00410-1", "NP_009326", "COX2" ], [ "P00410-1", "NP_009326", "OXI1; OXII" ], [ "P00420-1", "NP_009328", "COX3" ], [ "P00420-1", "NP_009328", "OXI2" ], [ "P0CE93-1", "NP_009332", "PAU8" ], [ "P39709-1", "NP_009333", "SEO1" ], [ "Q6B2U8-1", "NP_058136", "TDA8" ], [ "Q6B2U8-1", "NP_058136", "YAL065C-A" ], [ "P39712-1", "NP_009338", "FLO9" ], [ "P39708-1", "NP_009339", "GDH3" ], [ "P39708-1", "NP_009339", "FUN51" ], [ "P39713-1", "NP_009340", "BDH2" ], [ "P39714-1", "NP_009341", "BDH1" ], [ "P39715-1", "NP_009342", "ECM1" ], [ "P27825-1", "NP_009343", "CNE1" ], [ "P27825-1", "NP_009343", "FUN48" ], [ "P39717-1", "NP_009345", "GPB2" ], [ "P39717-1", "NP_009345", "KRH1" ], [ "P39718-1", "NP_009346", "PEX22" ], [ "P39718-1", "NP_009346", "YAF5" ], [ "Q01574-1", "NP_009347", "ACS1" ], [ "Q01574-1", "NP_009347", "FUN44" ], [ "P39719-1", "NP_009348", "FLC2" ], [ "P39720-1", "NP_009349", "OAF1" ], [ "P39720-1", "NP_009349", "YAF1" ], [ "P39721-1", "NP_009350", "AIM2" ], [ "P39722-1", "NP_009351", "GEM1" ], [ "P39722-1", "NP_009351", "GON1" ], [ "P39723-1", "NP_009352", "SPC72" ], [ "P39723-1", "NP_009352", "LDB4" ], [ "P39724-1", "NP_009353", "BOL3" ], [ "P39724-1", "NP_009353", "AIM1" ], [ "Q3E793-1", "NP_075206", "BOL1" ], [ "P39726-1", "NP_009355", "GCV3" ], [ "Q01329-1", "NP_009356", "PTA1" ], [ "Q01329-1", "NP_009356", "FUN39" ], [ "P39727-1", "NP_009358", "ERV46" ], [ "P39727-1", "NP_009358", "FUN9" ], [ "P11433-1", "NP_009359", "CDC24" ], [ "P11433-1", "NP_009359", "CLS4" ], [ "P13365-1", "NP_009360", "CLN3" ], [ "P13365-1", "NP_009360", "DAF1; FUN10; WHI1" ], [ "P06182-1", "NP_009361", "CYC3" ], [ "P00549-1", "NP_009362", "CDC19" ], [ "P00549-1", "NP_009362", "PYK1" ], [ "P39729-1", "NP_009364", "RBG1" ], [ "P39729-1", "NP_009364", "FUN11" ], [ "P39730-1", "NP_009365", "FUN12" ], [ "P39730-1", "NP_009365", "yIF2" ], [ "P39731-1", "NP_009367", "MTW1" ], [ "P39731-1", "NP_009367", "DSN3; NSL2" ], [ "P28003-1", "NP_009368", "FUN19" ], [ "P28005-1", "NP_009369", "POP5" ], [ "P28005-1", "NP_009369", "FUN53" ], [ "P28004-1", "NP_009370", "PRP45" ], [ "P28004-1", "NP_009370", "FUN20" ], [ "P39732-1", "NP_009371", "GIP4" ], [ "P39732-1", "NP_009371", "FUN21" ], [ "P31109-1", "NP_009372", "SNC1" ], [ "P32492-1", "NP_009373", "MYO4" ], [ "P32492-1", "NP_009373", "FUN22; SHE1" ], [ "P39734-1", "NP_009374", "FRT2" ] ] }, "readme": "Name\n - Yeast Gene Names (NCBI RefSeq)\n\nVersion\n - v-2.4.1\n\nCreated on\n - 2022-08-30T15:40:57.216837\n\nModified on\n - 2023-09-11T19:01:53\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 - Not Applicable []\n\nChecksum\n - \n\nUsability Domain\n - The Yeast Gene Names (NCBI RefSeq) dataset contains yeast [taxid:559292] gene Names/names (primary gene name and gene synonyms) from NCBI RefSeq database. If you use this dataset please provide proper attribution to NCBI RefSeq and GlyGen\n\nDescription Domain\n Keywords\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 Names/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: yeast_protein_xref_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/yeast_protein_xref_refseq.csv\n Output Subdomain\n Name: yeast_protein_genenames_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/yeast_protein_genenames_refseq.csv\n Name: yeast_protein_genenames_refseq.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/yeast_protein_genenames_refseq.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"5225\"\n Name: \"refseq_ac\"\n Description: \"Accession in the NCBI RefSeq database\"\n Unique Values: \"5225\"\n Name: \"refseq_gene_name\"\n Description: \"The gene name/symbol in NCBI RefSeq database.\"\n Unique Values: \"7136\"", "downloadurl": "/ln2data/releases/data/v-2.4.1/reviewed/yeast_protein_genenames_refseq.csv" }