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REVIGO summarizes and visualizes long lists of Gene Ontology terms

Supek, Fran; Bošnjak, Matko; Škunca, Nives; Šmuc, Tomislav (2011) REVIGO summarizes and visualizes long lists of Gene Ontology terms. PLoS ONE, 6 (7). e21800/1-e21800/9. ISSN 1932-6203

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Abstract

Outcomes of high-throughput biological experiments are typically interpreted by statistical testing for enriched gene functional categories defined by the Gene Ontology (GO). The resulting lists of GO terms may be large and highly redundant, and thus difficult to interpret. REVIGO is a Web server that summarizes long, unintelligible lists of GO terms by finding a representative subset of the terms using a simple clustering algorithm that relies on semantic similarity measures. Furthermore, REVIGO visualizes this non-redundant GO term set in multiple ways to assist in interpretation: multidimensional scaling and graph-based visualizations accurately render the subdivisions and the semantic relationships in the data, while treemaps and tag clouds are also offered as alternative views. REVIGO is freely available at http://revigo.irb.hr/.

Item Type: Article
Uncontrolled Keywords: Gene Ontology; visualization; enrichment; graph; semantic similarity; redundancy
Subjects: NATURAL SCIENCES > Biology
TECHNICAL SCIENCES > Computing
BIOTECHNICAL SCIENCES > Biotechnology
Divisions: Division of Electronics
Projects:
Project titleProject leaderProject codeProject type
Strojno učenje prediktivnih modela u računalnoj biologiji[136501] Tomislav Šmuc098-0000000-3168MZOS
Depositing User: Fran Supek
Date Deposited: 13 Apr 2015 13:33
Last Modified: 06 Jul 2015 09:51
URI: http://fulir.irb.hr/id/eprint/1726
DOI: 10.1371/journal.pone.0021800

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