Present version: BiNGO 3.0.3 (compatible with Cytoscape 3.0 and above)
Notice: using default annotations and ontologies is no longer suggested for anything more than the usual quick-and-dirty analysis. Default annotations and ontologies date in August 2010 and will be updated irregularly. BiNGO now supports using annotation and ontology files downloaded in www.geneontology.org.
If you use BiNGO on your research, please cite:
Maere S, Heymans K, Kuiper M (2005) BiNGO: a Cytoscape plugin to assess overrepresentation of Gene Ontology classes in biological networks. (PubMed)
BiNGO : A Biological Network Gene Ontology tool.
BiNGO is a Java-based tool to determine which Gene Ontology (GO) groups are statistically overrepresented in a set of genes or a subgraph of a biological network. BiNGO is implemented as a plugin for Cytoscape, and it is a an open source bioinformatics software platform for visualizing and integrating molecular interaction networks. BiNGO maps the overriding operational topics of a given gene set on the GO hierarchy, and sparks this mapping as a Cytoscape graph. Gene sets may either be selected or calculated from a Cytoscape network (like subgraphs) or compiled from sources other than Cytoscape (e.g. a list of genes which are significantly upregulated in a microarray experiment). The main benefit of BiNGO along with other GO tools is that it may be used right and interactively on molecular interaction graphs. Another plus is that BiNGO takes complete benefit of Cytoscape’s versatile visualization environment. This permits you to create customized high-quality characters.
* assessing overrepresentation or underrepresentation of GO categories.
* batch manner: analyze several clusters simultaneously using same settings.
* Multiple testing correction using Bonferroni (FWER) or BenjaminiHochberg (FDR) correction.
* Interactive visualization of outcomes mapped on the GO hierarchy.
* extensive results in tab-delimited text document format.
* create and use custom annotations, ontologies and reference sets.
To have a taste, please have a look at the tutorial section.
You may want to test our other tools too: