{ "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": [ "Severe acute respiratory syndrome coronavirus 2" ], "molecule": [ "Protein" ], "tag": [ "Gene Ontology (Go)" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "P0DTC7-1...", "..." ], [ "P0DTC7-1...", "..." ] ], "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" } ], [ "P0DTC7-1", "", "GO_0016020", "membrane", "cellular_component", "", "" ], [ "P0DTC7-1", "", "GO_0039502", "suppression by virus of host type I interferon-mediated signaling pathway", "biological_process", "", "" ], [ "P0DTC7-1", "", "GO_0044220", "host cell perinuclear region of cytoplasm", "cellular_component", "", "" ], [ "P0DTC7-1", "", "GO_0055036", "virion membrane", "cellular_component", "", "" ], [ "P0DTC7-1", "", "GO_0039587", "suppression by virus of host tetherin activity", "biological_process", "", "" ], [ "P0DTC7-1", "", "GO_0039646", "modulation by virus of host G0/G1 transition checkpoint", "biological_process", "", "" ], [ "P0DTC7-1", "", "GO_0044173", "host cell endoplasmic reticulum-Golgi intermediate compartment membrane", "cellular_component", "", "" ], [ "P0DTC7-1", "", "GO_0044178", "host cell Golgi membrane", "cellular_component", "", "" ], [ "P0DTC7-1", "", "GO_0044167", "host cell endoplasmic reticulum membrane", "cellular_component", "", "" ], [ "P0DTC7-1", "", "GO_0046776", "suppression by virus of host antigen processing and presentation of peptide antigen via MHC class I", "biological_process", "", "" ], [ "P0DTC6-1", "", "GO_0005643", "nuclear pore", "cellular_component", "", "" ], [ "P0DTC6-1", "", "GO_0016020", "membrane", "cellular_component", "", "" ], [ "P0DTC6-1", "", "GO_0039502", "suppression by virus of host type I interferon-mediated signaling pathway", "biological_process", "", "" ], [ "P0DTC6-1", "", "GO_0039563", "suppression by virus of host JAK-STAT cascade via inhibition of STAT1 activity", "biological_process", "", "" ], [ "P0DTC6-1", "", "GO_0039564", "suppression by virus of host JAK-STAT cascade via inhibition of STAT2 activity", "biological_process", "", "" ], [ "P0DTC6-1", "", "GO_0039548", "suppression by virus of host viral-induced cytoplasmic pattern recognition receptor signaling pathway via inhibition of IRF3 activity", "biological_process", "", "" ], [ "P0DTC6-1", "", "GO_0044178", "host cell Golgi membrane", "cellular_component", "", "" ], [ "P0DTC6-1", "", "GO_0044167", "host cell endoplasmic reticulum membrane", "cellular_component", "", "" ], [ "P0DTC6-1", "", "GO_0140311", "protein sequestering activity", "molecular_function", "", "" ], [ "P0DTC5-1", "", "GO_0005886", "plasma membrane", "cellular_component", "", "" ], [ "P0DTC5-1", "", "GO_0042802", "identical protein binding", "molecular_function", "", "" ], [ "P0DTC5-1", "", "GO_0019031", "viral envelope", "cellular_component", "", "" ], [ "P0DTC5-1", "", "GO_0005793", "endoplasmic reticulum-Golgi intermediate compartment", "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_0039545", "suppression by virus of host viral-induced cytoplasmic pattern recognition receptor signaling pathway via inhibition of MAVS activity", "biological_process", "", "" ], [ "P0DTC5-1", "", "GO_0140311", "protein sequestering activity", "molecular_function", "", "" ], [ "P0DTC5-1", "", "GO_0140678", "molecular function inhibitor activity", "molecular_function", "", "" ], [ "P0DTC5-1", "", "GO_0039709", "cytoplasmic capsid assembly", "biological_process", "", "" ], [ "P0DTC4-1", "E", "GO_0005216", "monoatomic ion channel activity", "molecular_function", "", "" ], [ "P0DTC4-1", "E", "GO_0016020", "membrane", "cellular_component", "", "" ], [ "P0DTC4-1", "E", "GO_0042802", "identical protein binding", "molecular_function", "", "" ], [ "P0DTC4-1", "E", "GO_0005793", "endoplasmic reticulum-Golgi intermediate compartment", "cellular_component", "", "" ], [ "P0DTC4-1", "E", "GO_0051673", "disruption of membrane integrity in another organism", "biological_process", "", "" ], [ "P0DTC4-1", "E", "GO_0055036", "virion membrane", "cellular_component", "", "" ], [ "P0DTC4-1", "E", "GO_0039660", "structural constituent of virion", "molecular_function", "", "" ], [ "P0DTC4-1", "E", "GO_0044178", "host cell Golgi membrane", "cellular_component", "", "" ], [ "P0DTC4-1", "E", "GO_0046760", "viral budding from Golgi membrane", "biological_process", "", "" ], [ "P0DTC4-1", "E", "GO_0039707", "pore formation by virus in membrane of host cell", "biological_process", "", "" ], [ "P0DTC4-1", "E", "GO_0039709", "cytoplasmic capsid assembly", "biological_process", "", "" ], [ "P0DTC3-1", "", "GO_0098662", "inorganic cation transmembrane transport", "biological_process", "", "" ], [ "P0DTC3-1", "", "GO_0005216", "monoatomic ion channel activity", "molecular_function", "", "" ], [ "P0DTC3-1", "", "GO_0005576", "extracellular region", "cellular_component", "", "" ], [ "P0DTC3-1", "", "GO_0005886", "plasma membrane", "cellular_component", "", "" ], [ "P0DTC3-1", "", "GO_0042802", "identical protein binding", "molecular_function", "", "" ], [ "P0DTC3-1", "", "GO_0051259", "protein complex oligomerization", "biological_process", "", "" ], [ "P0DTC3-1", "", "GO_0008076", "voltage-gated potassium channel complex", "cellular_component", "", "" ], [ "P0DTC3-1", "", "GO_0005891", "voltage-gated calcium channel complex", "cellular_component", "", "" ], [ "P0DTC3-1", "", "GO_0055036", "virion membrane", "cellular_component", "", "" ], [ "P0DTC3-1", "", "GO_0020002", "host cell plasma membrane", "cellular_component", "", "" ], [ "P0DTC3-1", "", "GO_0039707", "pore formation by virus in membrane of host cell", "biological_process", "", "" ], [ "P0DTC3-1", "", "GO_0044165", "host cell endoplasmic reticulum", "cellular_component", "", "" ], [ "P0DTC3-1", "", "GO_0044167", "host cell endoplasmic reticulum membrane", "cellular_component", "", "" ], [ "P0DTC3-1", "", "GO_0044174", "host cell endosome", "cellular_component", "", "" ], [ "P0DTC3-1", "", "GO_0044187", "host cell lysosome", "cellular_component", "", "" ], [ "P0DTC3-1", "", "GO_0140677", "molecular function activator activity", "molecular_function", "", "" ], [ "P0DTC3-1", "", "GO_0140883", "induction by virus of host reticulophagy", "biological_process", "", "" ], [ "P0DTC2-1", "S", "GO_0019058", "viral life cycle", "biological_process", "", "" ], [ "P0DTC2-1", "S", "GO_0044228", "host cell surface", "cellular_component", "", "" ], [ "P0DTC2-1", "S", "GO_0005886", "plasma membrane", "cellular_component", "", "" ], [ "P0DTC2-1", "S", "GO_0042802", "identical protein binding", "molecular_function", "", "" ], [ "P0DTC2-1", "S", "GO_0046598", "positive regulation of viral entry into host cell", "biological_process", "", "" ], [ "P0DTC2-1", "S", "GO_0046718", "viral entry into host cell", "biological_process", "", "" ], [ "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", "", "" ], [ "P0DTC2-1", "S", "GO_0039502", "suppression by virus of host type I interferon-mediated signaling pathway", "biological_process", "", "" ], [ "P0DTC2-1", "S", "GO_0019081", "viral translation", "biological_process", "", "" ], [ "P0DTC2-1", "S", "GO_0019065", "receptor-mediated endocytosis of virus by host cell", "biological_process", "", "" ], [ "P0DTC2-1", "S", "GO_0019064", "fusion of virus membrane with host plasma membrane", "biological_process", "", "" ], [ "P0DTC2-1", "S", "GO_0019062", "virion attachment to host cell", "biological_process", "", "" ], [ "P0DTC2-1", "S", "GO_0046789", "host cell surface receptor binding", "molecular_function", "", "" ], [ "P0DTC2-1", "S", "GO_0055036", "virion membrane", "cellular_component", "", "" ], [ "P0DTC2-1", "S", "GO_0039587", "suppression by virus of host tetherin activity", "biological_process", "", "" ], [ "P0DTC2-1", "S", "GO_0039660", "structural constituent of virion", "molecular_function", "", "" ], [ "P0DTC2-1", "S", "GO_0044173", "host cell endoplasmic reticulum-Golgi intermediate compartment membrane", "cellular_component", "", "" ], [ "P0DTC2-1", "S", "GO_0020002", "host cell plasma membrane", "cellular_component", "", "" ], [ "P0DTC2-1", "S", "GO_0039654", "fusion of virus membrane with host endosome membrane", "biological_process", "", "" ], [ "P0DTC2-1", "S", "GO_0043655", "host extracellular space", "cellular_component", "", "" ], [ "P0DTC1-1", "", "GO_0019082", "viral protein processing", "biological_process", "", "" ], [ "P0DTC1-1", "", "GO_0006508", "proteolysis", "biological_process", "", "" ], [ "P0DTC1-1", "", "GO_0008242", "omega peptidase activity", "molecular_function", "", "" ], [ "P0DTC1-1", "", "GO_0008270", "zinc ion binding", "molecular_function", "", "" ] ] }, "readme": "Name\n - SARS-CoV2 Gene Ontology (GO)\n\nVersion\n - v-2.2.1\n\nCreated on\n - 2020-04-03T11:46:41.584409\n\nModified on\n - 2022-09-26T09:05:56.506394\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]\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 sequences.\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-sars-cov-2.nt\n URI: https:/data.glygen.org/ln2downloads/ebi/2023_10_30/uniprot-proteome-sars-cov-2.nt\n Output Subdomain\n Name: sarscov2_protein_go_annotation.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/sarscov2_protein_go_annotation.csv\n Name: sarscov2_protein_go_annotation.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/sarscov2_protein_go_annotation.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"14\"\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_id\"\n Description: \"The Gene Ontology (GO) term unique alphanumeric identifier\"\n Unique Values: \"148\"\n Name: \"go_term_label\"\n Description: \"The Gene Ontology (GO) name that is a word or string of words\"\n Unique Values: \"148\"\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: \"eco_id\"\n Description: \"Evidence & Conclusion Ontology (ECO) identifier\"\n Unique Values: \"1\"\n Name: \"pmid\"\n Description: \"NCBI PubMed database Identifier\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-2.2.1/reviewed/sarscov2_protein_go_annotation.csv" }