Abstract
The Biological Networks Gene Ontology tool (BiNGO) is an open-source Java tool to determine which Gene Ontology (GO) terms are significantly overrepresented in a set of genes. BiNGO can be used either on a list of genes, pasted as text, or interactively on subgraphs of biological networks visualized in Cytoscape. BiNGO maps the predominant functional themes of the tested gene set on the GO hierarchy, and takes advantage of Cytoscape's versatile visualization environment to produce an intuitive and customizable visual representation of the results.
Keywords
Plug-inJavaOntologyComputer scienceVisualizationGene ontologySet (abstract data type)HierarchyRepresentation (politics)Biological networkGeneComputational biologyBiologyData miningProgramming languageGeneticsGene expression
Affiliated Institutions
Related Publications
Ontologizer 2.0—a multifunctional tool for GO term enrichment analysis and data exploration
Abstract Summary: The Ontologizer is a Java application that can be used to perform statistical analysis for overrepresentation of Gene Ontology (GO) terms in sets of genes or p...
Improved detection of overrepresentation of Gene-Ontology annotations with parent–child analysis
Abstract Motivation: High-throughput experiments such as microarray hybridizations often yield long lists of genes found to share a certain characteristic such as differential e...
GOlorize: a Cytoscape plug-in for network visualization with Gene Ontology-based layout and coloring
Abstract Summary: We have implemented a graph layout algorithm that exposes Gene Ontology (GO) class structure on the network nodes. It can be used in conjunction with BiNGO plu...
SimCT: a generic tool to visualize ontology-based relationships for biological objects
Abstract Summary: We present a web-based service, SimCT, which allows to graphically display the relationships between biological objects (e.g. genes or proteins) based on their...
ClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks
Abstract Summary: We have developed ClueGO, an easy to use Cytoscape plug-in that strongly improves biological interpretation of large lists of genes. ClueGO integrates Gene Ont...
Publication Info
- Year
- 2005
- Type
- article
- Volume
- 21
- Issue
- 16
- Pages
- 3448-3449
- Citations
- 4214
- Access
- Closed
External Links
Social Impact
Altmetric
PlumX Metrics
Social media, news, blog, policy document mentions
Citation Metrics
4214
OpenAlex
Cite This
Steven Maere,
K. Heymans,
Martin Kuiper
(2005).
BiNGO: a Cytoscape plugin to assess overrepresentation of Gene Ontology categories in Biological Networks.
Computer applications in the biosciences
, 21
(16)
, 3448-3449.
https://doi.org/10.1093/bioinformatics/bti551
Identifiers
- DOI
- 10.1093/bioinformatics/bti551