BioLayoutJava: Versatile Network Visualisation of Structural and Functional Relationships

Authors: Goldovsky, Leon; Cases, Ildefonso; Enright, Anton J.; Ouzounis, Christos A.

Source: Applied Bioinformatics, Volume 4, Number 1, 2005 , pp. 71-74(4)

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Abstract:

Visualisation of biological networks is becoming a common task for the analysis of high-throughput data. These networks correspond to a wide variety of biological relationships, such as sequence similarity, metabolic pathways, gene regulatory cascades and protein interactions. We present a general approach for the representation and analysis of networks of variable type, size and complexity. The application is based on the original BioLayout program (C-language implementation of the Fruchterman-Rheingold layout algorithm), entirely re-written in Java™ to guarantee portability across platforms. BioLayout^Java provides broader functionality, various analysis techniques, extensions for better visualisation and a new user interface. Examples of analysis of biological networks using BioLayout^Java are presented.

Availability: BioLayout^Java has been tested on Windows^® XP, Mac OS^® X, Linux and Solaris™ operating systems, and is available from http://www.biolayout.org. The program is free for academic and non-profit research institutions.

Contact: biolayout@ebi.ac.uk

Keywords: Bioinformatics; Data mining

Document Type: Research article

Affiliations: 1: Computational Genomics Group, European Bioinformatics Institute, EMBL Cambridge Outstation, Cambridge, UK

Publication date: 2005-01-01