A considerable fraction of yeast gene promoters are bound by multiple transcription factors. To study the combinatorial interactions of multiple transcription factors is thus impor...
Abstract. In this paper, we study lower bound techniques for branchand-bound algorithms for maximum parsimony, with a focus on gene order data. We give a simple O(n3 ) time dynamic...
Abraham Bachrach, Kevin Chen, Chris Harrelson, Rad...
Abstract. Gene rearrangements have been used successfully in phylogenetic reconstruction and comparative genomics, but usually under the assumption that all genomes have the same g...
Krister M. Swenson, Nicholas D. Pattengale, Bernar...
Abstract. Current approaches for identification and detection of transcription factor binding sites rely on an extensive set of known target genes. Here we describe a novel structu...
The multiple species de novo gene prediction problem can be stated as follows: given an alignment of genomic sequences from two or more organisms, predict the location and structur...