Background: Development of high-throughput methods for measuring DNA interactions of transcription factors together with computational advances in short motif inference algorithms...
Over the last two decades a large number of algorithms has been developed for regulatory motif finding. Here we show how many of these algorithms, especially those that model bind...
Stochastic relational models (SRMs) [15] provide a rich family of choices for learning and predicting dyadic data between two sets of entities. The models generalize matrix factor...
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...