{ "bcoid": "GLY_000789", "title": "Yeast UniProtKB Xref OMA", "description": "The Yeast UniProtKB Xref OMA contains yeast [taxid:559292] UniProtKB canonical accessions cross-referenced ...", "filename": "yeast_protein_xref_oma.csv", "filetype": "csv", "categories": { "species": [ "Saccharomyces cerevisiae S288C" ], "molecule": [ "Protein" ], "tag": [ "Oma cross-references" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "P30619-1...", "protein_xref..." ], [ "P39970-1...", "protein_xref..." ] ], "headers": [ "uniprotkb_ca...", "xref_key..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" }, { "type": "string", "label": "xref_label" } ], [ "P30619-1", "protein_xref_oma", "PFTRPHT", "" ], [ "P39970-1", "protein_xref_oma", "NQAYINM", "" ], [ "P39971-1", "protein_xref_oma", "ELNNCFH", "" ], [ "P39976-1", "protein_xref_oma", "WAIRECT", "" ], [ "P39975-1", "protein_xref_oma", "CHERAFF", "" ], [ "P39978-1", "protein_xref_oma", "CTDIQST", "" ], [ "Q07959-1", "protein_xref_oma", "CSHTLWH", "" ], [ "P25379-1", "protein_xref_oma", "DPLLWAG", "" ], [ "P25378-1", "protein_xref_oma", "SARHNEN", "" ], [ "P17121-1", "protein_xref_oma", "NNPKSMS", "" ], [ "P25374-1", "protein_xref_oma", "KGLYWAR", "" ], [ "P17122-1", "protein_xref_oma", "FWDELIF", "" ], [ "P25371-1", "protein_xref_oma", "HYAIAIV", "" ], [ "P25370-1", "protein_xref_oma", "DRANCIC", "" ], [ "P25373-1", "protein_xref_oma", "NMSGPVA", "" ], [ "P25372-1", "protein_xref_oma", "PPCRQMG", "" ], [ "Q06568-1", "protein_xref_oma", "AASHEYE", "" ], [ "Q03049-1", "protein_xref_oma", "CKSRQKW", "" ], [ "Q06567-1", "protein_xref_oma", "NPNRRRH", "" ], [ "Q06563-1", "protein_xref_oma", "CAPTMIG", "" ], [ "Q00539-1", "protein_xref_oma", "HGTTIGQ", "" ], [ "Q07748-1", "protein_xref_oma", "DWFVNPD", "" ], [ "Q07963-1", "protein_xref_oma", "TKYSMRE", "" ], [ "Q07967-1", "protein_xref_oma", "PAPHVEM", "" ], [ "Q00246-1", "protein_xref_oma", "GAFAHIQ", "" ], [ "Q00245-1", "protein_xref_oma", "MPLCGGS", "" ], [ "P40422-1", "protein_xref_oma", "MTYICGD", "" ], [ "P18494-1", "protein_xref_oma", "IAQLWDF", "" ], [ "P18496-1", "protein_xref_oma", "KPYYREW", "" ], [ "Q03441-1", "protein_xref_oma", "HHTHPKL", "" ], [ "Q08748-1", "protein_xref_oma", "QDFVWRW", "" ], [ "Q08749-1", "protein_xref_oma", "DYIPKRK", "" ], [ "Q08746-1", "protein_xref_oma", "KMVYDEA", "" ], [ "Q08747-1", "protein_xref_oma", "FEMHKIL", "" ], [ "Q08745-1", "protein_xref_oma", "ERTKIHR", "" ], [ "Q08742-1", "protein_xref_oma", "FFCQMGR", "" ], [ "Q08743-1", "protein_xref_oma", "FRVMPIQ", "" ], [ "P32915-1", "protein_xref_oma", "KWGIGSG", "" ], [ "P32914-1", "protein_xref_oma", "FDGMIAV", "" ], [ "P32917-1", "protein_xref_oma", "SHQECLI", "" ], [ "P32916-1", "protein_xref_oma", "MVNMVYA", "" ], [ "P32911-1", "protein_xref_oma", "GQDYIHI", "" ], [ "P32910-1", "protein_xref_oma", "AVYFDEW", "" ], [ "P32913-1", "protein_xref_oma", "FYLGTME", "" ], [ "P32912-1", "protein_xref_oma", "NITMMRI", "" ], [ "Q04438-1", "protein_xref_oma", "FAHEYRE", "" ], [ "Q04439-1", "protein_xref_oma", "CQIICRS", "" ], [ "Q04430-1", "protein_xref_oma", "WAQEGDN", "" ], [ "Q04431-1", "protein_xref_oma", "LADECHT", "" ], [ "Q04432-1", "protein_xref_oma", "YEKAAQP", "" ], [ "Q04433-1", "protein_xref_oma", "THESNNW", "" ], [ "Q04437-1", "protein_xref_oma", "DIRGFMD", "" ], [ "P00546-1", "protein_xref_oma", "TAYYSGR", "" ], [ "P04385-1", "protein_xref_oma", "FGGCTVN", "" ], [ "P04387-1", "protein_xref_oma", "VDALCYV", "" ], [ "P04386-1", "protein_xref_oma", "WGVFIFD", "" ], [ "Q08299-1", "protein_xref_oma", "MSVYQIG", "" ], [ "Q08562-1", "protein_xref_oma", "WCMEQLE", "" ], [ "Q08560-1", "protein_xref_oma", "MAFSWFI", "" ], [ "Q08561-1", "protein_xref_oma", "PWENSSK", "" ], [ "P25377-1", "protein_xref_oma", "ISICAPE", "" ], [ "P25376-1", "protein_xref_oma", "VITINIF", "" ], [ "P32474-1", "protein_xref_oma", "FFGMKKD", "" ], [ "P04037-1", "protein_xref_oma", "DSHDTIY", "" ], [ "P04039-1", "protein_xref_oma", "HFKEGVY", "" ], [ "Q05955-1", "protein_xref_oma", "FRWCLQF", "" ], [ "P00724-1", "protein_xref_oma", "GTEWRHA", "" ], [ "P00729-1", "protein_xref_oma", "GDWMKPF", "" ], [ "Q03048-1", "protein_xref_oma", "NECKYAI", "" ], [ "P50896-1", "protein_xref_oma", "YYVCQER", "" ], [ "P32786-1", "protein_xref_oma", "PAFTLMQ", "" ], [ "Q02872-1", "protein_xref_oma", "EYMIERC", "" ], [ "Q02873-1", "protein_xref_oma", "CVWEIYN", "" ], [ "Q02875-1", "protein_xref_oma", "RQEFLRW", "" ], [ "P36096-1", "protein_xref_oma", "LEGWMRF", "" ], [ "Q10740-1", "protein_xref_oma", "CTALQWM", "" ], [ "Q05473-1", "protein_xref_oma", "FTKTINC", "" ], [ "Q05471-1", "protein_xref_oma", "AFQQWFG", "" ], [ "Q04170-1", "protein_xref_oma", "YGVGEVN", "" ], [ "Q03220-1", "protein_xref_oma", "HENVGAK", "" ], [ "P53045-1", "protein_xref_oma", "EIMFYYA", "" ], [ "P53157-1", "protein_xref_oma", "CTTHFWG", "" ], [ "Q07747-1", "protein_xref_oma", "HIELYQM", "" ], [ "P19073-1", "protein_xref_oma", "ANIRSKW", "" ] ] }, "readme": "Name\n - Yeast UniProtKB Xref OMA\n\nVersion\n - v-2.4.1\n\nCreated on\n - 2022-08-31T13:20:12.938783\n\nModified on\n - 2023-09-11T20:28:15\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 UniProtKB Xref OMA contains yeast [taxid:559292] UniProtKB canonical accessions cross-referenced to OMA database accessions/identifiers. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\n - The OMA (Orthologous MAtrix) project is a method and database for the inference of orthologs among complete genomes.\n\nDescription Domain\n Keywords\n - orthologs\n - OMA\n - cross-reference\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB canonical accessions that are cross-referenced to OMA database accessions/identifiers from the triplestore containing triples from nt file and extracts the data as a csv dataset. \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_xref_oma.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/yeast_protein_xref_oma.csv\n Name: yeast_protein_xref_oma.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/yeast_protein_xref_oma.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"5393\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"5391\"\n Name: \"xref_label\"\n Description: \"Label/Name associated with x-ref\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-2.4.1/reviewed/yeast_protein_xref_oma.csv" }