{ "bcoid": "GLY_000362", "title": "HCV1b Gene Ontology (GO)", "description": "The Hepatitis C virus (genotype 1b, isolate Japanese) Gene Ontology (GO) dataset contains hcv1b [taxid:11116] ...", "filename": "hcv1b_protein_go_annotation.csv", "filetype": "csv", "categories": { "species": "Hepatitis C virus (genotype 1b, isolate Japanese)", "molecule": "Protein", "tags": "Gene Ontology (Go)", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "P26662-1...", "..." ], [ "P26662-1...", "..." ] ], "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" } ], [ "P26662-1", "", "GO_0044164", "host cell cytosol", "cellular_component", "ECO_0000314", "12925958" ], [ "P26662-1", "", "GO_0042025", "host cell nucleus", "cellular_component", "ECO_0000314", "12925958" ], [ "P26662-1", "", "GO_0003677", "DNA binding", "molecular_function", "ECO_0000315", "18033802" ], [ "P26662-1", "", "GO_0003723", "RNA binding", "molecular_function", "ECO_0000315", "18033802" ], [ "P26662-1", "", "GO_0043066", "negative regulation of apoptotic process", "biological_process", "ECO_0000314", "12925958" ], [ "P26662-1", "", "GO_0032993", "protein-DNA complex", "cellular_component", "ECO_0000315", "18033802" ], [ "P26662-1", "", "GO_0060139", "positive regulation of apoptotic process by virus", "biological_process", "ECO_0000314", "12925958" ], [ "P26662-1", "", "GO_1990904", "ribonucleoprotein complex", "cellular_component", "ECO_0000315", "18033802" ], [ "P26662-1", "", "GO_0033592", "RNA strand annealing activity", "molecular_function", "ECO_0000315", "18033802" ], [ "P26662-1", "", "GO_1902807", "negative regulation of cell cycle G1/S phase transition", "biological_process", "ECO_0000314", "12925958" ], [ "P26662-1", "", "GO_0003724", "RNA helicase activity", "molecular_function", "ECO_0000314", "8970970" ], [ "P26662-1", "", "GO_0043489", "RNA stabilization", "biological_process", "ECO_0000315", "18033802" ], [ "P26662-1", "", "GO_1990814", "DNA/DNA annealing activity", "molecular_function", "ECO_0000315", "18033802" ], [ "P26662-1", "", "GO_0030430", "host cell cytoplasm", "cellular_component", "ECO_0000314", "12925958" ], [ "P26662-1", "", "GO_0003968", "RNA-directed 5'-3' RNA polymerase activity", "molecular_function", "", "" ], [ "P26662-1", "", "GO_0004252", "serine-type endopeptidase activity", "molecular_function", "", "" ], [ "P26662-1", "", "GO_0005216", "ion channel activity", "molecular_function", "", "" ], [ "P26662-1", "", "GO_0005524", "ATP binding", "molecular_function", "", "" ], [ "P26662-1", "", "GO_0005576", "extracellular region", "cellular_component", "", "" ], [ "P26662-1", "", "GO_0008270", "zinc ion binding", "molecular_function", "", "" ], [ "P26662-1", "", "GO_0016021", "integral component of membrane", "cellular_component", "", "" ], [ "P26662-1", "", "GO_0051259", "protein complex oligomerization", "biological_process", "", "" ], [ "P26662-1", "", "GO_0005198", "structural molecule activity", "molecular_function", "", "" ], [ "P26662-1", "", "GO_0019031", "viral envelope", "cellular_component", "", "" ], [ "P26662-1", "", "GO_0004197", "cysteine-type endopeptidase activity", "molecular_function", "", "" ], [ "P26662-1", "", "GO_0019087", "transformation of host cell by virus", "biological_process", "", "" ], [ "P26662-1", "", "GO_0039502", "suppression by virus of host type I interferon-mediated signaling pathway", "biological_process", "", "" ], [ "P26662-1", "", "GO_0039563", "suppression by virus of host STAT1 activity", "biological_process", "", "" ], [ "P26662-1", "", "GO_0019013", "viral nucleocapsid", "cellular_component", "", "" ], [ "P26662-1", "", "GO_0039520", "induction by virus of host autophagy", "biological_process", "", "" ], [ "P26662-1", "", "GO_0039694", "viral RNA genome replication", "biological_process", "", "" ], [ "P26662-1", "", "GO_0044220", "host cell perinuclear region of cytoplasm", "cellular_component", "", "" ], [ "P26662-1", "", "GO_0019062", "virion attachment to host cell", "biological_process", "", "" ], [ "P26662-1", "", "GO_0055036", "virion membrane", "cellular_component", "", "" ], [ "P26662-1", "", "GO_0020002", "host cell plasma membrane", "cellular_component", "", "" ], [ "P26662-1", "", "GO_0039545", "suppression by virus of host MAVS activity", "biological_process", "", "" ], [ "P26662-1", "", "GO_0039547", "suppression by virus of host TRAF activity", "biological_process", "", "" ], [ "P26662-1", "", "GO_0039645", "modulation by virus of host G1/S transition checkpoint", "biological_process", "", "" ], [ "P26662-1", "", "GO_0039654", "fusion of virus membrane with host endosome membrane", "biological_process", "", "" ], [ "P26662-1", "", "GO_0039707", "pore formation by virus in membrane of host cell", "biological_process", "", "" ], [ "P26662-1", "", "GO_0044167", "host cell endoplasmic reticulum membrane", "cellular_component", "", "" ], [ "P26662-1", "", "GO_0044186", "host cell lipid droplet", "cellular_component", "", "" ], [ "P26662-1", "", "GO_0044191", "host cell mitochondrial membrane", "cellular_component", "", "" ], [ "P26662-1", "", "GO_0044385", "integral to membrane of host cell", "cellular_component", "", "" ], [ "P26662-1", "", "GO_0075512", "clathrin-dependent endocytosis of virus by host cell", "biological_process", "", "" ] ] }, "readme": "Name\n - HCV1b Gene Ontology (GO)\n\nVersion\n - 1.5.23\n\nCreated on\n - 2020-03-14T15:19:44.880963\n\nModified on\n - 2020-04-09T18:05:41.159736\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 Hepatitis C virus (genotype 1b, isolate Japanese) Gene Ontology (GO) dataset contains hcv1b [taxid:11116] Gene Ontology Id and name, categories and evidence information for UniProtKB canonical accessions. The dataset is derived from 2019-09 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-hepatitis-c-virus-1b.nt\n URI: https://data.glygen.org/ln2wwwdata/source/uniprot-proteome-hepatitis-c-virus-1b.nt\n Name: hcv1b_protein_masterlist.csv\n URI: https://data.glygen.org/ln2wwwdata/reviewed/hcv1b_protein_masterlist.csv\n Output Subdomain\n Name: hcv1b_protein_go_annotation.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/hcv1b_protein_go_annotation.csv\n Name: hcv1b_protein_go_annotation.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/hcv1b_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: \"1\"\n Name: \"go_term_label\"\n Description: \"The Gene Ontology (GO) name that is a word or string of words\"\n Unique Values: \"45\"\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: \"1\"\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: \"45\"\n Name: \"pmid\"\n Description: \"NCBI PubMed database Identifier\"\n Unique Values: \"4\"\n Name: \"eco_id\"\n Description: \"Evidence & Conclusion Ontology (ECO) identifier\"\n Unique Values: \"3\"", "downloadurl": "/ln2data/releases/data/v-1.5.23/reviewed/hcv1b_protein_go_annotation.csv" }