{ "bcoid": "GLY_000767", "title": "Yeast Protein Names (NCBI RefSeq)", "description": "The Yeast Protein Names (NCBI RefSeq) dataset contains yeast [taxid:559292] protein names (primary and ...", "filename": "yeast_protein_proteinnames_refseq.csv", "filetype": "csv", "categories": { "species": [ "Saccharomyces cerevisiae S288C" ], "molecule": [ "Protein" ], "tag": [ "Protein Names" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "P30619-1...", "NP_010448..." ], [ "P39972-1...", "NP_010839..." ] ], "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_protein_name" } ], [ "P30619-1", "NP_010448", "Sec1p" ], [ "P39972-1", "NP_010839", "uncharacterized protein" ], [ "P39970-1", "NP_010964", "Aca1p" ], [ "P39971-1", "NP_010837", "uncharacterized protein" ], [ "P39976-1", "NP_010843", "D-lactate dehydrogenase" ], [ "P39977-1", "NP_001257672", "uncharacterized protein" ], [ "P39974-1", "NP_010841", "uncharacterized protein" ], [ "P39975-1", "NP_010842", "Rmd6p" ], [ "P39978-1", "NP_010847", "uncharacterized protein" ], [ "P39979-1", "NP_010848", "D-amino-acid N-acetyltransferase" ], [ "Q07959-1", "NP_013123", "Izh3p" ], [ "P0CX69-1", "NP_013766", "gag protein" ], [ "P25379-1", "NP_001018030", "L-serine/L-threonine ammonia-lyase CHA1" ], [ "P25378-1", "NP_009956", "putative GTPase RHB1" ], [ "P17121-1", "NP_010677", "GTPase-activating protein SAC7" ], [ "P25374-1", "NP_009912", "cysteine desulfurase" ], [ "P17123-1", "NP_012022", "Spo12p" ], [ "P17122-1", "NP_012023", "Spo16p" ], [ "P25371-1", "NP_009937", "putative ATP-dependent permease ADP1" ], [ "P25370-1", "NP_009894", "Gfd2p" ], [ "P25373-1", "NP_009895", "dithiol glutaredoxin GRX1" ], [ "P25372-1", "NP_010006", "Trx3p" ], [ "Q06568-1", "NP_013355", "Ndl1p" ], [ "Q03049-1", "NP_010830", "carbonyl reductase (NADPH-dependent)" ], [ "Q06567-1", "NP_013354", "Cqd2p" ], [ "Q06563-1", "NP_013352", "ethanol metabolism protein" ], [ "Q00539-1", "NP_011954", "Nam8p" ], [ "Q07748-1", "NP_010037", "4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate synthase" ], [ "Q07963-1", "NP_013124", "putative ubiquitin-protein ligase UBR2" ], [ "Q07967-1", "NP_013130", "uncharacterized protein" ], [ "Q00246-1", "NP_012981", "Rho family GTPase RHO4" ], [ "Q00245-1", "NP_012148", "Rho family GTPase RHO3" ], [ "P0CX61-1", "NP_058157", "gag protein" ], [ "P40422-1", "NP_012013", "DNA-directed RNA polymerase core subunit RPC10" ], [ "P0CX62-1", "NP_058157", "gag protein" ], [ "P0CX64-1", "NP_058163", "gag-pol fusion protein" ], [ "P0CX67-1", "NP_013766", "gag protein" ], [ "P18494-1", "NP_010958", "nitrogen-responsive transcriptional regulator GLN3" ], [ "P18496-1", "NP_013497", "Atp10p" ], [ "Q03441-1", "NP_010283", "Rmd1p" ], [ "Q08748-1", "NP_014939", "uncharacterized protein" ], [ "Q08749-1", "NP_014940", "Tim18p" ], [ "Q08746-1", "NP_014937", "Rrs1p" ], [ "Q08747-1", "NP_014938", "Uaf30p" ], [ "Q08745-1", "NP_014936", "ribosomal 40S subunit protein S10A" ], [ "Q08742-1", "NP_014929", "thiosulfate sulfurtransferase RDL2" ], [ "Q08743-1", "NP_014935", "uncharacterized protein" ], [ "P32915-1", "NP_013482", "translocon subunit SEC61" ], [ "P32914-1", "NP_011577", "transcription elongation factor SPT4" ], [ "P32917-1", "NP_010388", "Ste5p" ], [ "P32916-1", "NP_010578", "Signal recognition particle receptor subunit alpha" ], [ "P32911-1", "NP_014155", "translation initiation factor eIF1" ], [ "P32910-1", "NP_014400", "DNA-directed RNA polymerase III subunit C34" ], [ "P32913-1", "NP_014775", "retromer subunit VPS17" ], [ "P32912-1", "NP_011303", "Vam7p" ], [ "Q04438-1", "NP_013825", "Spg4p" ], [ "Q04439-1", "NP_013827", "myosin 5" ], [ "Q04430-1", "NP_010820", "pantothenate kinase" ], [ "Q04431-1", "NP_010821", "Kre28p" ], [ "Q04432-1", "NP_010822", "glutathione-independent methylglyoxalase" ], [ "Q04433-1", "NP_010823", "Fit1p" ], [ "Q04437-1", "NP_013824", "ATP-dependent DNA helicase YKU80" ], [ "P00546-1", "NP_009718", "cyclin-dependent serine/threonine-protein kinase CDC28" ], [ "P04385-1", "NP_009576", "galactokinase" ], [ "P04387-1", "NP_013661", "transcription regulator GAL80" ], [ "P04386-1", "NP_015076", "galactose-responsive transcription factor GAL4" ], [ "Q08299-1", "NP_014484", "Enb1p" ], [ "Q08562-1", "NP_014834", "translocase ULS1" ], [ "Q08560-1", "NP_014829", "uncharacterized protein" ], [ "Q08561-1", "NP_014832", "Ies4p" ], [ "P25377-1", "NP_010030", "NADP-dependent alcohol dehydrogenase" ], [ "P25376-1", "NP_009905", "amino acid transporter AGP1" ], [ "P32474-1", "NP_010806", "protein disulfide isomerase EUG1" ], [ "P09007-1", "NP_009944", "Srd1p" ], [ "P04037-1", "NP_011328", "cytochrome c oxidase subunit IV" ], [ "P04039-1", "NP_013499", "cytochrome c oxidase subunit VIII" ], [ "Q05955-1", "NP_013328", "Ady4p" ], [ "P00724-1", "NP_012104", "beta-fructofuranosidase SUC2" ], [ "P00729-1", "NP_014026", "carboxypeptidase C PRC1" ], [ "Q03048-1", "NP_013050", "cofilin" ], [ "P50896-1", "NP_010793", "Psp1p" ], [ "P32786-1", "NP_009539", "Rrn6p" ], [ "Q02872-1", "NP_015217", "uncharacterized protein" ], [ "Q02873-1", "NP_015218", "Dpc25p" ] ] }, "readme": "Name\n - Yeast Protein Names (NCBI RefSeq)\n\nVersion\n - v-2.4.1\n\nCreated on\n - 2022-08-31T10:35:44.201343\n\nModified on\n - 2023-09-11T19:19:16\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 - \n\nChecksum\n - \n\nUsability Domain\n - The Yeast Protein Names (NCBI RefSeq) dataset contains yeast [taxid:559292] protein names (primary and other alternative/synonym protein names) 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 names\n - NCBI RefSeq\n\n Pipeline Steps\n - Step-1: The script parses the NCBI RefSeq gpff files to extract the protein 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_proteinnames_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/yeast_protein_proteinnames_refseq.csv\n Name: yeast_protein_proteinnames_refseq.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/yeast_protein_proteinnames_refseq.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"5910\"\n Name: \"refseq_ac\"\n Description: \"Accession in the NCBI RefSeq database\"\n Unique Values: \"5844\"\n Name: \"refseq_protein_name\"\n Description: \"Name of the protein in NCBI RefSeq database\"\n Unique Values: \"5079\"", "downloadurl": "/ln2data/releases/data/v-2.4.1/reviewed/yeast_protein_proteinnames_refseq.csv" }