Background: Many statistical algorithms combine microarray expression data and genome sequence data to identify transcription factor binding motifs in the low eukaryotic genomes. ...
Background: Motif finding algorithms have developed in their ability to use computationally efficient methods to detect patterns in biological sequences. However the posterior cla...
Ana C. Casimiro, Susana Vinga, Ana T. Freitas, Arl...
— We present an integrative method for clustering coregulated genes and elucidating their underlying regulatory mechanisms. We use multi-state partition functions and thermodynam...
Background: Remote homology detection is a challenging problem in Bioinformatics. Arguably, profile Hidden Markov Models (pHMMs) are one of the most successful approaches in addre...
Phylogenetic footprinting is a comparative genomics approach for predicting transcription factor binding sites, where a set of orthologous regulatory regions are compared and short...