{ "bcoid": "GLY_000242", "title": "Rat Gene Ontology (GO)", "description": "The Rat Gene Ontology (GO) dataset contains rat [taxid:10116] Gene Ontology Id and name, categories and ...", "filename": "rat_protein_go_annotation.csv", "filetype": "csv", "categories": { "species": "Rattus norvegicus", "molecule": "Protein", "tags": "Gene Ontology (Go)", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "D3ZB44-1...", "Zfp324..." ], [ "D3ZB44-1...", "Zfp324..." ] ], "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" } ], [ "D3ZB44-1", "Zfp324", "GO_0005634", "nucleus", "cellular_component", "ECO_0000318", "21873635" ], [ "D3ZB44-1", "Zfp324", "GO_0006357", "regulation of transcription by RNA polymerase II", "biological_process", "ECO_0000318", "21873635" ], [ "D3ZB44-1", "Zfp324", "GO_0046872", "metal ion binding", "molecular_function", "", "" ], [ "D3ZB44-1", "Zfp324", "GO_0000978", "RNA polymerase II cis-regulatory region sequence-specific DNA binding", "molecular_function", "ECO_0000318", "21873635" ], [ "D3ZB44-1", "Zfp324", "GO_0000981", "DNA-binding transcription factor activity, RNA polymerase II-specific", "molecular_function", "ECO_0000318", "21873635" ], [ "D3ZXJ3-1", "Zfp78", "GO_0046872", "metal ion binding", "molecular_function", "", "" ], [ "D3ZXJ3-1", "Zfp78", "GO_0006355", "regulation of transcription, DNA-templated", "biological_process", "", "" ], [ "D3ZB49-1", "Osgin2", "GO_0030308", "negative regulation of cell growth", "biological_process", "ECO_0000318", "21873635" ], [ "D3ZB49-1", "Osgin2", "GO_0008083", "growth factor activity", "molecular_function", "ECO_0000318", "21873635" ], [ "D3ZB48-1", "Hook1", "GO_0030897", "HOPS complex", "cellular_component", "", "" ], [ "D3ZB48-1", "Hook1", "GO_0003779", "actin binding", "molecular_function", "", "" ], [ "D3ZB48-1", "Hook1", "GO_0005737", "cytoplasm", "cellular_component", "", "" ], [ "D3ZB48-1", "Hook1", "GO_0005813", "centrosome", "cellular_component", "ECO_0000318", "21873635" ], [ "D3ZB48-1", "Hook1", "GO_0005829", "cytosol", "cellular_component", "", "" ], [ "D3ZB48-1", "Hook1", "GO_0005874", "microtubule", "cellular_component", "", "" ], [ "D3ZB48-1", "Hook1", "GO_0008017", "microtubule binding", "molecular_function", "", "" ], [ "D3ZB48-1", "Hook1", "GO_0042802", "identical protein binding", "molecular_function", "", "" ], [ "D3ZB48-1", "Hook1", "GO_0042803", "protein homodimerization activity", "molecular_function", "", "" ], [ "D3ZB48-1", "Hook1", "GO_0015630", "microtubule cytoskeleton", "cellular_component", "", "" ], [ "D3ZB48-1", "Hook1", "GO_0007286", "spermatid development", "biological_process", "", "" ], [ "D3ZB48-1", "Hook1", "GO_0007032", "endosome organization", "biological_process", "", "" ], [ "D3ZB48-1", "Hook1", "GO_0007040", "lysosome organization", "biological_process", "", "" ], [ "D3ZB48-1", "Hook1", "GO_0008333", "endosome to lysosome transport", "biological_process", "", "" ], [ "D3ZB48-1", "Hook1", "GO_0045022", "early endosome to late endosome transport", "biological_process", "", "" ], [ "D3ZB48-1", "Hook1", "GO_0070695", "FHF complex", "cellular_component", "", "" ], [ "D3ZB48-1", "Hook1", "GO_0007030", "Golgi organization", "biological_process", "", "" ], [ "D3ZB48-1", "Hook1", "GO_0030705", "cytoskeleton-dependent intracellular transport", "biological_process", "ECO_0000318", "21873635" ], [ "D3ZB48-1", "Hook1", "GO_1905719", "protein localization to perinuclear region of cytoplasm", "biological_process", "", "" ], [ "D3ZB48-1", "Hook1", "GO_0051959", "dynein light intermediate chain binding", "molecular_function", "ECO_0000318", "21873635" ], [ "D3ZB48-1", "Hook1", "GO_0031122", "cytoplasmic microtubule organization", "biological_process", "", "" ], [ "D3ZB48-1", "Hook1", "GO_1905198", "manchette assembly", "biological_process", "", "" ], [ "Q5RJZ1-1", "Rtel1", "GO_0003677", "DNA binding", "molecular_function", "", "" ], [ "Q5RJZ1-1", "Rtel1", "GO_0005524", "ATP binding", "molecular_function", "", "" ], [ "Q5RJZ1-1", "Rtel1", "GO_0005634", "nucleus", "cellular_component", "", "" ], [ "Q5RJZ1-1", "Rtel1", "GO_0006281", "DNA repair", "biological_process", "", "" ], [ "Q5RJZ1-1", "Rtel1", "GO_0006310", "DNA recombination", "biological_process", "", "" ], [ "Q5RJZ1-1", "Rtel1", "GO_0046872", "metal ion binding", "molecular_function", "", "" ], [ "Q5RJZ1-1", "Rtel1", "GO_0051539", "4 iron, 4 sulfur cluster binding", "molecular_function", "", "" ], [ "Q5RJZ1-1", "Rtel1", "GO_0000723", "telomere maintenance", "biological_process", "", "" ], [ "Q5RJZ1-1", "Rtel1", "GO_0006260", "DNA replication", "biological_process", "", "" ], [ "Q5RJZ1-1", "Rtel1", "GO_0003678", "DNA helicase activity", "molecular_function", "", "" ], [ "Q5RJZ1-1", "Rtel1", "GO_0010569", "regulation of double-strand break repair via homologous recombination", "biological_process", "", "" ], [ "Q5RJZ1-1", "Rtel1", "GO_0140603", "ATP hydrolysis activity", "molecular_function", "", "" ], [ "Q0HA29-1", "Nmnat2", "GO_1904385", "cellular response to angiotensin", "biological_process", "ECO_0000270", "22449973" ], [ "Q0HA29-1", "Nmnat2", "GO_0000139", "Golgi membrane", "cellular_component", "", "" ], [ "Q0HA29-1", "Nmnat2", "GO_0005524", "ATP binding", "molecular_function", "", "" ], [ "Q0HA29-1", "Nmnat2", "GO_0005737", "cytoplasm", "cellular_component", "ECO_0000314", "22449973" ], [ "Q0HA29-1", "Nmnat2", "GO_0005794", "Golgi apparatus", "cellular_component", "", "" ], [ "Q0HA29-1", "Nmnat2", "GO_0030424", "axon", "cellular_component", "", "" ], [ "Q0HA29-1", "Nmnat2", "GO_0045202", "synapse", "cellular_component", "", "" ], [ "Q0HA29-1", "Nmnat2", "GO_0030659", "cytoplasmic vesicle membrane", "cellular_component", "", "" ], [ "Q0HA29-1", "Nmnat2", "GO_0005770", "late endosome", "cellular_component", "", "" ], [ "Q0HA29-1", "Nmnat2", "GO_0007568", "aging", "biological_process", "ECO_0000270", "22449973" ], [ "Q0HA29-1", "Nmnat2", "GO_0004515", "nicotinate-nucleotide adenylyltransferase activity", "molecular_function", "", "" ], [ "Q0HA29-1", "Nmnat2", "GO_0009435", "NAD biosynthetic process", "biological_process", "ECO_0000315", "22449973" ], [ "Q0HA29-1", "Nmnat2", "GO_0005802", "trans-Golgi network", "cellular_component", "", "" ], [ "Q0HA29-1", "Nmnat2", "GO_0000309", "nicotinamide-nucleotide adenylyltransferase activity", "molecular_function", "ECO_0000318", "21873635" ], [ "A0A0G2JVG6-1", "", "GO_0005634", "nucleus", "cellular_component", "ECO_0000318", "21873635" ], [ "A0A0G2JVG6-1", "", "GO_0006357", "regulation of transcription by RNA polymerase II", "biological_process", "ECO_0000318", "21873635" ], [ "A0A0G2JVG6-1", "", "GO_0000978", "RNA polymerase II cis-regulatory region sequence-specific DNA binding", "molecular_function", "ECO_0000318", "21873635" ], [ "A0A0G2JVG6-1", "", "GO_0000981", "DNA-binding transcription factor activity, RNA polymerase II-specific", "molecular_function", "ECO_0000318", "21873635" ], [ "P30938-1", "Sstr5", "GO_0004994", "somatostatin receptor activity", "molecular_function", "ECO_0000314", "1362243" ], [ "P30938-1", "Sstr5", "GO_0004930", "G protein-coupled receptor activity", "molecular_function", "ECO_0000318", "21873635" ], [ "P30938-1", "Sstr5", "GO_0005737", "cytoplasm", "cellular_component", "ECO_0000314", "9322965" ], [ "P30938-1", "Sstr5", "GO_0005886", "plasma membrane", "cellular_component", "ECO_0000314", "9322965" ], [ "P30938-1", "Sstr5", "GO_0005887", "integral component of plasma membrane", "cellular_component", "ECO_0000318", "21873635" ], [ "P30938-1", "Sstr5", "GO_0007218", "neuropeptide signaling pathway", "biological_process", "ECO_0000318", "21873635" ], [ "P30938-1", "Sstr5", "GO_0007193", "adenylate cyclase-inhibiting G protein-coupled receptor signaling pathway", "biological_process", "ECO_0000314", "1362243" ], [ "P30938-1", "Sstr5", "GO_0042593", "glucose homeostasis", "biological_process", "", "" ], [ "P30938-1", "Sstr5", "GO_0043005", "neuron projection", "cellular_component", "ECO_0000318", "21873635" ], [ "P30938-1", "Sstr5", "GO_0050796", "regulation of insulin secretion", "biological_process", "", "" ], [ "P30938-1", "Sstr5", "GO_0042277", "peptide binding", "molecular_function", "ECO_0000318", "21873635" ], [ "P30938-1", "Sstr5", "GO_0071385", "cellular response to glucocorticoid stimulus", "biological_process", "ECO_0000270", "14512709" ], [ "P30938-1", "Sstr5", "GO_0032467", "positive regulation of cytokinesis", "biological_process", "", "" ], [ "P30938-1", "Sstr5", "GO_0042923", "neuropeptide binding", "molecular_function", "ECO_0000318", "21873635" ], [ "A0A0G2JVG8-1", "Olr410", "GO_0004930", "G protein-coupled receptor activity", "molecular_function", "", "" ], [ "A0A0G2JVG8-1", "Olr410", "GO_0005886", "plasma membrane", "cellular_component", "", "" ], [ "A0A0G2JVG8-1", "Olr410", "GO_0016021", "integral component of membrane", "cellular_component", "", "" ], [ "A0A0G2JVG8-1", "Olr410", "GO_0004984", "olfactory receptor activity", "molecular_function", "ECO_0000318", "21873635" ], [ "A0A0G2JVG8-1", "Olr410", "GO_0019840", "isoprenoid binding", "molecular_function", "", "" ], [ "Q99372-1", "Eln", "GO_0005576", "extracellular region", "cellular_component", "", "" ], [ "Q99372-1", "Eln", "GO_0030198", "extracellular matrix organization", "biological_process", "", "" ], [ "Q99372-1", "Eln", "GO_0050840", "extracellular matrix binding", "molecular_function", "", "" ], [ "Q99372-1", "Eln", "GO_0043149", "stress fiber assembly", "biological_process", "", "" ] ] }, "readme": "Name\n - Rat Gene Ontology (GO)\n\nVersion\n - 1.11.2\n\nCreated on\n - 2019-09-06T14:06:38.969307\n\nModified on\n - 2022-01-19T12:51:37.090812\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Xavier Holmes [xavierh@email.gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Amanda Bell [amandab2140@gwu.edu], Jonathon Keeney [keeneyjg@gwu.edu], Millicent Quartey [mquartey@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 Rat Gene Ontology (GO) dataset contains rat [taxid:10116] Gene Ontology Id and name, categories and evidence information for UniProtKB canonical accessions. The dataset is derived from 2019-09 UniProtKB 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/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: rat_protein_masterlist.csv\n URI: https://data.glygen.org//ln2releases/data/v-1.11.2/reviewed/rat_protein_masterlist.csv\n Name: uuniprot-proteome-rattus-norvegicus.nt\n URI: https://data.glygen.org//ln2downloads/ebi/2021_03/uniprot-proteome-rattus-norvegicus.nt\n Output Subdomain\n Name: rat_protein_go_annotation.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_go_annotation.csv\n Name: rat_protein_go_annotation.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_go_annotation.stat.csv", "downloadurl": "/ln2data/releases/data/v-1.12.1/reviewed/rat_protein_go_annotation.csv" }