Marina - identification of over/under-represented TFBSs given large sets of promoter-sequences

Utilizing numerous statistical metrics, Marina aims to deduce magnitude of TFBS over-representation given multiple sets of input sequences.
For detailed information, please see the Marina webpage [URL].

PAICE and MAPT - Useful, in-house scripts to colorize and mine KEGG pathways

Originally developed for in-house analyses, PAICE and MAPT have helped us in tasks when we sought to overlay gene-expression data onto corresponding KEGG pathways. [PAICE URL], [MAPT URL]

TASE - Tag-counting and Analysis of Solexa Experiments

A Java application running on an SQL Server backend, for older CASAVA-build (v. 1.0) read-counting. [URL]