This paper integrates the signal, context and structure features for genome-wide promoter recognition, which is critical in many DNA sequence analysis tasks. First, CpG islands ar...
Background: The study of genome rearrangements has become a mainstay of phylogenetics and comparative genomics. Fundamental in such a study is the median problem: given three geno...
Vaibhav Rajan, Andrew Wei Xu, Yu Lin, Krister M. S...
Millions of DNA sequences (reads) are generated by Next Generation Sequencing machines everyday. There is a need for high performance algorithms to map these sequences to the refer...
Background: Many statistical algorithms combine microarray expression data and genome sequence data to identify transcription factor binding motifs in the low eukaryotic genomes. ...
We have developed a new algorithm that allows the exhaustive determination of words of up to 12 nucleotides in DNA sequences. It is fast enough as to be used at a genomic scale ru...