Histones are DNA-binding proteins found in the chromatin of all eukaryotic cells. They are highly conserved and can be grouped into five major classes: H1/H5, H2A, H2B, H3, and H4...
Several computeralgorithms for discovering patterns in groups of protein sequences are in use that are basedon fitting the parametersof a statistical model to a group of related s...
Identification of Transcription Factor Binding Site (TFBS) motifs in multiple DNA upstream sequences is important in understanding the mechanism of gene regulation. This identific...
Aligning DNA and protein sequences is a core technique in molecular biology. Often, it is desirable to include partial prior knowledge and conditions in an alignment. Going beyond...
— We present an integrative method for clustering coregulated genes and elucidating their underlying regulatory mechanisms. We use multi-state partition functions and thermodynam...