The representation of a genome by oligonucleotide probes is a prerequisite for the analysis of many of its basic properties, such as transcription factor binding sites, chromosomal...
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: Computational discovery of motifs in biomolecular sequences is an established field, with applications both in the discovery of functional sites in proteins and regula...
Motivation: Sigma factors regulate the expression of genes in Bacillus subtilis at the transcriptional level. First we assess the ability of currently available gene regulatory ne...
Michiel J. L. de Hoon, Yuko Makita, Seiya Imoto, K...
Background: This work explores the quantitative characteristics of the local transcriptional regulatory network based on the availability of time dependent gene expression data se...