Abstract Motivation: The computational identification of transcription factor binding sites is a major challenge in bioinformatics and an important complement to experimental approaches. Results: We describe a novel, exact discriminative seeding DNA motif discovery algorithm designed for fast and reliable prediction of cis-regulatory elements in eukaryotic promoters. The algorithm is tested on biological benchmark data and shown to perform equally or better than other motif discovery tools. The algorithm is applied to the analysis of plant tissue-specific promoter sequences and successfully identifies key regulatory elements. Availability: The Seeder Perl distribution includes four modules. It is available for download on the Comprehensive Perl Archive Network (CPAN) at http://www.cpan.org. Contact: [email protected] Supplementary information: Supplementary data are available at Bioinformatics online.

Abstract Summary: TableView is a generalized scientific visualization program for exploration of various biological data, including EST, SAGE, microarray and annotation data. Written in Java, TableView is portable, is easily used together with other software including DBMSs and is versatile enough to be applied to any tabular data Availability: TableView is freely available at: http://ccgb.umn.edu/software/java/apps/TableView/ Contact: [email protected] * To whom correspondence should be addressed. † Present address: Macalester College, Mathematics and Computer Science, St Paul, MN 55105, USA.