Given a phylogenetic tree for a family of tandemly repeated genes and their signed order on the chromosome, we aim to find the minimum number of inversions compatible with an evo...
Abstract. Computational inference of transcriptional regulatory networks remains a challenging problem, in part due to the lack of strong network models. In this paper we present e...
Background: To understand the evolutionary role of Lateral Gene Transfer (LGT), accurate methods are needed to identify transferred genes and infer their timing of acquisition. Ph...
Sophie S. Abby, Eric Tannier, Manolo Gouy, Vincent...
Phylogenetic trees are commonly reconstructed based on hard optimization problems such as Maximum parsimony (MP) and Maximum likelihood (ML). Conventional MP heuristics for produc...
Anupam Bhattacharjee, Kazi Zakia Sultana, Zalia Sh...
Background: Overlapping genes (OGs) in bacterial genomes are pairs of adjacent genes of which the coding sequences overlap partly or entirely. With the rapid accumulation of seque...