TOUCAN is a workbench for regulatory sequence analysis on metazoan genomes: comparative genomics, detection of significant transcription factor binding sites, and detection of cis-regulatory modules (combinations of binding sites) in sets of coexpressed/coregulated genes. It is a platform independent, standalone Java application that is tightly linked with Ensembl, and was built using the BioJava package. SOAP web services are used to remotely access multiple algorithms for comparative genomics, motif detection, and module detection.
The manual of older versions is here. Herbert Mayer has evaluated TOUCAN for Bioinformatics World and has added some useful comments: http://homepage.univie.ac.at/herbert.mayer/MainGEN.html#TOUCAN
- Stein Aerts, Gert Thijs, Bert Coessens, Mik Staes, Yves Moreau, Bart De Moor (2003) "TOUCAN : Deciphering the Cis-Regulatory Logic of Coregulated Genes". Nucl Acids Res, vol. 31, no. 6, 2003, pp. 1753-1764.
- Stein Aerts, Peter Van Loo, Gert Thijs, Herbert Mayer, Rainer de Martin, Yves Moreau and Bart De Moor (2005) "TOUCAN 2: the all-inclusive open source workbench for regulatory sequence analysis". Nucl Acids Res, vol. 33 (Web Server issue), W393-6.