The Gene Ontology Consortium

By Michael Ashburner, C. Ball, Judith A. Blake, David Botstein, Heather Butler, J. Cherry, Allan Peter Davis, Kara Dolinski, S. Dwight, Janan T. Eppig and 10 more. 2000

623 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/ff4c1f00d92a16b7018ea90f5cea89606675785e

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Citations in the corpus

Using deep learning to model the hierarchical structure and function of a cell (2018, background): “Here, we have explored such visible learning in the context of cell biology, by incorporating an unprecedented collection of knowledge 10,11,30 and data 15,16,31 to simultaneously simulate cell hierarchical structure and function.”
High Quality Binary Protein Interaction Map of the Yeast Interactome Network (2008, background): “Weinvestigatedtheoverallrelationshipsbe-tweenY2H-unionandGeneOntology(GO)attributes( 38 ), phenotypic and expression profiling similarities ( 39 ), and transcriptional regulatory networks ( 40 ).”
Exploring autophagy with Gene Ontology (2016, background): “19 GO terms are de ﬁ ned in 2 ways: a human-readable textual de ﬁ - nition and, wherever possible, a computable de ﬁ nition that can be interpreted computationally.”
Advances in natural language processing (2015, background): “Ifapartialknowledgebase — forinstance,Freebase ( 36 ), dbpedia ( 37 ), Wikidata ( 38 ) (related to Wikipedia),ortheGeneOntologydatabase( 32 ) — hasalready been extracted from biomedical research articles, then there is an opportunity to automatically align known facts from the knowledge base with…”
PANTHER Pathway: an ontology-based pathway database coupled with data analysis tools (2009, background): “The Gene Ontology (GO) was probably the first ontology that was designed as a formal representation of biological knowledge (Ashburner et al. 2003; Gene Ontology Consortium 2006).”
QSAR without borders (2020, background): “For instance, it was demonstrated that gene ontology (GO) terms 144 and HTS results can be translated into input features for cheminformatics models.”
Species-level functional profiling of metagenomes and metatranscriptomes (2018, background): “These mappings are weighted by quality and sequence length to estimate per-organism and community-total gene family abundance, which can be regrouped to other functional systems (e.g. COGs 25 , KOs 26 , Pfam domains 27 , and GO terms 28 ).”
GeneCodis3: a non-redundant and modular enrichment analysis tool for functional genomics (2012, background): “Tools that translate large lists of genes or proteins into related terms from Gene Ontology (GO) (1) such as Onto-Express (2), DAVID (3), FATIGO+(4) or ProfCom (5) are now routinely used.”
The human disease network (2007, background): “Genes associated with the same disorder share common cellular and functional characteristics, as annotated in the Gene Ontology (GO) (24).”
FunSpec: a web-based cluster interpreter for yeast (2002, background): “Similarly, the Gene Ontology (GO) Consortium organizes the same information under the categorizations: Biological Process, Molecular Function and Cellular Component [10].”