Variable order Markov models and variable order Bayesian trees have been proposed for the recognition of transcription factor binding sites, and it could be demonstrated that they...
Jan Grau, Irad E. Ben-Gal, Stefan Posch, Ivo Gross...
Background: In vertebrates, a large part of gene transcriptional regulation is operated by cisregulatory modules. These modules are believed to be regulating much of the tissue-sp...
We present BayesMD, a Bayesian Motif Discovery model with several new features. Three different types of biological a priori knowledge are built into the framework in a modular fa...
Background: Sequence motifs representing transcription factor binding sites (TFBS) are commonly encoded as position frequency matrices (PFM) or degenerate consensus sequences (CS)...
Background: Many DNA regulatory elements occur as multiple instances within a target promoter. Gibbs sampling programs for finding DNA regulatory elements de novo can be prohibiti...