The Gene Ontology Annotation (GOA) project: implementation of GO in SWISS-PROT, TrEMBL, and InterPro.

By Evelyn Camon, Michele Magrane, Daniel Barrell, David Binns, Wolfgang Fleischmann, Paul Julian Kersey, Nicola J. Mulder, T. Oinn, John Maslen, Anthony J. Cox and 1 more. Genome Research, 2003

381 citations recorded by the source corpus.

Gene Ontology Annotation (GOA) is a project run by the European Bioinformatics Institute (EBI) that aims to provide assignments of terms from the Gene Ontology (GO) resource to gene products in a number of its databases (http://www.ebi.ac.uk/GOA). In the first stage of this project, GO assignments have been applied to a data set representing the complete human proteome by a combination of electronic mappings and manual curation. This vocabulary has also been applied to the nonredundant proteome sets for all other completely sequenced organisms as well as to proteins from a wide range of organisms where the proteome is not yet complete.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/3070fbdf3247f74c1e96a8f14c5d6085e62fd421

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Citations in the corpus

Cell-PLoc 2.0: an improved package of web-servers for predicting subcellular localization of proteins in various organisms (2010, background): “0 is closely associated with the GO database [68,112,113] and functional domain database [114], with the continuous development of the GO database and functional domain database, more useful GO numbers and functional domain information will be incorporated into the prediction engine, further strengt”
The Gene Ontology Annotation (GOA) Database: sharing knowledge in Uniprot with Gene Ontology (2004, methodology): “The large-scale assignment of GO terms to UniProt entries has been made possible by successfully converting a proportion of the pre-existing knowledge held within the ̄at ®les into GO terms (7).”
WEGO: a web tool for plotting GO annotations (2006, methodology): “Compared with the QuickGO (17,18), which was developed by the GOA (Gene Ontology Annotation project), the External to GO Query is a simpler but handier tool.”
The Genomes of Oryza sativa: A History of Duplications (2005, result): “We present these results in Gene Ontology (GO) [39] and InterPro [40] formats.”
Plant-mPLoc: A Top-Down Strategy to Augment the Power for Predicting Plant Protein Subcellular Localization (2010, methodology): “The gene ontology (GO) representation for a protein sample in the original Plant-PLoc [13] was derived through its accession number from the GO database [16].”
The PANTHER database of protein families, subfamilies, functions and pathways (2004, background): “This approach will allow straightforward incorporation of external annotations such as those produced by single protein family databases, or from large ontology association projects such as GOA (19,20).”
iLoc-Euk: A Multi-Label Classifier for Predicting the Subcellular Localization of Singleplex and Multiplex Eukaryotic Proteins (2011, methodology): “uk/ GOA/ to find the corresponding GO number(s) [57] for each of the accession numbers collected in Step 4, followed by converting the GO numbers thus obtained to their GO_compress numbers as described in Step 1.”
Functional Annotation of the Arabidopsis Genome Using Controlled Vocabularies1 (2004, background): “The GO vocabularies are gaining widespread acceptance within the scientiﬁc community as the standard set of terms to use for functional annotation (Dwight et al., 2002; Camon et al., 2003; Hazbun et al., 2003; Hennig et al., 2003; Kanapin et al., 2003; King et al., 2003; Sprague et al., 2003).”
The Human Oral Microbiome Database: a web accessible resource for investigating oral microbe taxonomic and genomic information (2010, methodology): “To provide data on functional potential of genomes, BLASTP search result against Swiss-Prot are further processed for the construction of KEGG metabolic pathways and Gene Ontology trees, because the well-annotated Swiss-Prot protein sequence descriptions contains interlinks to the ENZYME (25) and Ge”
A New Method for Predicting the Subcellular Localization of Eukaryotic Proteins with Both Single and Multiple Sites: Euk-mPLoc 2.0 (2010, positive): “uk/GOA/ to find the corresponding GO numbers [43].”