Aggregation of bioinformatics data using Semantic Web technology
Web Semantics: Science, Services and Agents on the World Wide Web
Formulating and testing hypotheses in functional genomics
Artificial Intelligence in Medicine
Network-Based Inference of Cancer Progression from Microarray Data
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
Clustering of gene expression data based on shape similarity
EURASIP Journal on Bioinformatics and Systems Biology - Special issue on applications of signal procesing techniques to bioinformatics, genomics, and proteomics
An automatic gene ontology software tool for bicluster and cluster comparisons
CIBCB'09 Proceedings of the 6th Annual IEEE conference on Computational Intelligence in Bioinformatics and Computational Biology
Assessing the impact of network depth on the analysis of PPI networks: a case study
CIBCB'09 Proceedings of the 6th Annual IEEE conference on Computational Intelligence in Bioinformatics and Computational Biology
Statistical absolute evaluation of gene ontology terms with gene expression data
ISBRA'07 Proceedings of the 3rd international conference on Bioinformatics research and applications
TreeHugger: A New Test for Enrichment of Gene Ontology Terms
INFORMS Journal on Computing
Network-based inference of cancer progression from microarray data
ISBRA'08 Proceedings of the 4th international conference on Bioinformatics research and applications
Constructing treatment portfolios using affinity propagation
RECOMB'08 Proceedings of the 12th annual international conference on Research in computational molecular biology
Visualizing multivariate hierarchic data using enhanced radial space-filling layout
ISVC'10 Proceedings of the 6th international conference on Advances in visual computing - Volume Part I
Computational Biology and Chemistry
International Journal of Applied Mathematics and Computer Science
A molecular systems analysis of HOX PPI networks in hematopoiesis and leukemogenesis
Proceedings of the 2nd ACM Conference on Bioinformatics, Computational Biology and Biomedicine
Semi-bipartite graph visualization for gene ontology networks
GD'09 Proceedings of the 17th international conference on Graph Drawing
Dynamic bayesian network modeling of cyanobacterial biological processes via gene clustering
ICONIP'11 Proceedings of the 18th international conference on Neural Information Processing - Volume Part I
RECOMB'12 Proceedings of the 16th Annual international conference on Research in Computational Molecular Biology
Tutorial on biological networks
Wiley Interdisciplinary Reviews: Data Mining and Knowledge Discovery
Evolutionary analysis of functional modules in dynamic PPI networks
Proceedings of the ACM Conference on Bioinformatics, Computational Biology and Biomedicine
COnto-Diff: generation of complex evolution mappings for life science ontologies
Journal of Biomedical Informatics
Protein Interactions for Functional Genomics
International Journal of Knowledge Discovery in Bioinformatics
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Summary: 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. Availability: http://www.psb.ugent.be/cbd/papers/BiNGO/ Contact: martin.kuiper@psb.ugent.be