{ "bcoid": "GLY_000430", "title": "SARS-CoV2 Gene Ontology (GO)", "description": "The SARS coronavirus (SARS-CoV-2 or 2019-nCov) Gene Ontology (GO) dataset contains sarscov2 [taxid:2697049] ...", "filename": "sarscov2_protein_go_annotation.csv", "filetype": "csv", "categories": { "species": "SARS coronavirus (SARS-CoV-2 or 2019-nCoV)", "molecule": "Protein", "tags": "Gene Ontology (Go)", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "P0DTD1-1...", "rep..." ], [ "P0DTD1-1...", "rep..." ] ], "headers": [ "uniprotkb_ca...", "gene_symbol..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "gene_symbol" }, { "type": "string", "label": "go_term_id" }, { "type": "string", "label": "go_term_label" }, { "type": "string", "label": "go_term_category" }, { "type": "string", "label": "eco_id" }, { "type": "string", "label": "pmid" } ], [ "P0DTD1-1", "rep", "GO_0019082", "viral protein processing", "biological_process", "", "" ], [ "P0DTD1-1", "rep", "GO_0003968", "RNA-directed 5'-3' RNA polymerase activity", "molecular_function", "", "" ], [ "P0DTD1-1", "rep", "GO_0003723", "RNA binding", "molecular_function", "", "" ], [ "P0DTD1-1", "rep", "GO_0005524", "ATP binding", "molecular_function", "", "" ], [ "P0DTD1-1", "rep", "GO_0006351", "transcription, DNA-templated", "biological_process", "", "" ], [ "P0DTD1-1", "rep", "GO_0006508", "proteolysis", "biological_process", "", "" ], [ "P0DTD1-1", "rep", "GO_0008242", "omega peptidase activity", "molecular_function", "", "" ], [ "P0DTD1-1", "rep", "GO_0008270", "zinc ion binding", "molecular_function", "", "" ], [ "P0DTD1-1", "rep", "GO_0003676", "nucleic acid binding", "molecular_function", "", "" ], [ "P0DTD1-1", "rep", "GO_0016740", "transferase activity", "molecular_function", "", "" ], [ "P0DTD1-1", "rep", "GO_0008168", "methyltransferase activity", "molecular_function", "", "" ], [ "P0DTD1-1", "rep", "GO_0019079", "viral genome replication", "biological_process", "", "" ], [ "P0DTD1-1", "rep", "GO_0004197", "cysteine-type endopeptidase activity", "molecular_function", "", "" ], [ "P0DTD1-1", "rep", "GO_0008234", "cysteine-type peptidase activity", "molecular_function", "", "" ], [ "P0DTD1-1", "rep", "GO_0039694", "viral RNA genome replication", "biological_process", "", "" ], [ "P0DTD1-1", "rep", "GO_0016896", "exoribonuclease activity, producing 5'-phosphomonoesters", "molecular_function", "", "" ], [ "P0DTC5-1", "", "GO_0019058", "viral life cycle", "biological_process", "", "" ], [ "P0DTC5-1", "", "GO_0016021", "integral component of membrane", "cellular_component", "", "" ], [ "P0DTC5-1", "", "GO_0019031", "viral envelope", "cellular_component", "", "" ], [ "P0DTC5-1", "", "GO_0055036", "virion membrane", "cellular_component", "", "" ], [ "P0DTC5-1", "", "GO_0039660", "structural constituent of virion", "molecular_function", "", "" ], [ "P0DTC5-1", "", "GO_0044178", "host cell Golgi membrane", "cellular_component", "", "" ], [ "P0DTC5-1", "", "GO_0030430", "host cell cytoplasm", "cellular_component", "", "" ], [ "P0DTC4-1", "E", "GO_0016021", "integral component of membrane", "cellular_component", "", "" ], [ "P0DTC4-1", "E", "GO_0044178", "host cell Golgi membrane", "cellular_component", "", "" ], [ "P0DTC4-1", "E", "GO_0044662", "disruption by virus of host cell membrane", "biological_process", "", "" ], [ "P0DTC4-1", "E", "GO_0046760", "viral budding from Golgi membrane", "biological_process", "", "" ], [ "P0DTC4-1", "E", "GO_0044177", "host cell Golgi apparatus", "cellular_component", "", "" ], [ "P0DTC2-1", "S", "GO_0016021", "integral component of membrane", "cellular_component", "", "" ], [ "P0DTC2-1", "S", "GO_0046813", "receptor-mediated virion attachment to host cell", "biological_process", "", "" ], [ "P0DTC2-1", "S", "GO_0061025", "membrane fusion", "biological_process", "", "" ], [ "P0DTC2-1", "S", "GO_0019031", "viral envelope", "cellular_component", "", "" ], [ "P0DTC9-1", "N", "GO_0003723", "RNA binding", "molecular_function", "", "" ], [ "P0DTC9-1", "N", "GO_0019013", "viral nucleocapsid", "cellular_component", "", "" ], [ "P0DTC9-1", "N", "GO_0044172", "host cell endoplasmic reticulum-Golgi intermediate compartment", "cellular_component", "", "" ], [ "P0DTC9-1", "N", "GO_0044177", "host cell Golgi apparatus", "cellular_component", "", "" ] ] }, "readme": "Name\n - SARS-CoV2 Gene Ontology (GO)\n\nVersion\n - 1.5.27\n\nCreated on\n - 2020-04-03T11:46:41.584409\n\nModified on\n - 2020-04-10T12:26:18.336828\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@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 SARS coronavirus (SARS-CoV-2 or 2019-nCov) Gene Ontology (GO) dataset contains sarscov2 [taxid:2697049] Gene Ontology Id and name, categories and evidence information for UniProtKB canonical accessions. The dataset is derived from 2020-01 UniProt release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\n\nDescription Domain\n Keywords\n - go id\n - go name\n - molecular function\n - biological process\n - cellular component\n - Gene Ontology (GO)\n\n Pipeline Steps\n - Step-1: The script extracts the GO Id, name, category and evidence from the triplestore of NT file and maps it to the UniProtKB canonical sequnces\n\nExecution Domain\n Scripts - https://github.com/GW-HIVE/glygen-backend-integration/blob/master/pipeline/integrator/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-sars-cov-2.nt\n URI: https://data.glygen.org/ln2wwwdata/source/uniprot-proteome-sars-cov-2.nt\n Name: sarscov2_protein_masterlist.csv\n URI: https://data.glygen.org/ln2wwwdata/reviewed/sarscov2_protein_masterlist.csv\n Output Subdomain\n Name: sarscov2_protein_go_annotation.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/sarscov2_protein_go_annotation.csv\n Name: sarscov2_protein_go_annotation.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/sarscov2_protein_go_annotation.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"Accession assigned to the protein isoform chosen to be the canonical sequence to which all positional annotation refers in UniProtKB database\"\n Unique Values: \"5\"\n Name: \"go_term_label\"\n Description: \"The Gene Ontology (GO) name that is a word or string of words\"\n Unique Values: \"30\"\n Name: \"gene_symbol\"\n Description: \"Official gene name/symbol assigned to the gene. Human gene names/symbols are approved by the HUGO Gene Nomenclature Committee (HGNC)\n Unique Values: \"5\"\n Name: \"go_term_category\"\n Description: \"The Gene Ontology (GO) domain to which the term belongs. There are three ontology domain in GO - cellular component\n Unique Values: \"3\"\n Name: \"go_term_id\"\n Description: \"The Gene Ontology (GO) term unique alphanumeric identifier\"\n Unique Values: \"30\"\n Name: \"pmid\"\n Description: \"NCBI PubMed database Identifier\"\n Unique Values: \"1\"\n Name: \"eco_id\"\n Description: \"Evidence & Conclusion Ontology (ECO) identifier\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-1.5.27/reviewed/sarscov2_protein_go_annotation.csv" }