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Detecting recombination in evolving nucleotide sequences
BACKGROUND:Genetic recombination can produce heterogeneous phylogenetic histories within a set of homologous genes. These recombination events can be obscured by subsequent residue substitutions, which consequently complicate ...
GANN: Genetic algorithm neural networks for the detection of conserved combinations of features in DNA
BACKGROUND:The multitude of motif detection algorithms developed to date have largely focused on the detection of patterns in primary sequence. Since sequence-dependent DNA structure and flexibility may also play a role ...
Phylogenetic identification of lateral genetic transfer events
BACKGROUND:Lateral genetic transfer can lead to disagreements among phylogenetic trees comprising sequences from the same set of taxa. Where topological discordance is thought to have arisen through genetic transfer events, ...