Motivation: Understanding transcriptional regulation is one of the main challenges in
computational biology. An important problem is the identification of transcription factor (TF)
binding sites in promoter regions of potential TF target genes. It is typically approached by
position weight matrix-based motif identification algorithms using Gibbs sampling, or
heuristics to extend seed oligos. Such algorithms succeed in identifying single, relatively
well-conserved binding sites, but tend to fail when it comes to the identification of …

KIRMES: kernel-based identification of regulatory modules in euchromatic sequences …
KIRMES: kernel-based identification of regulatory modules in euchromatic sequences …