Detecting signatures of selection from DNA sequences using Datamonkey.
Natural selection is a fundamental process affecting all evolving populations. In the simplest case, positive selection increases the frequency of alleles that confer a fitness advantage relative to the rest of the population, or increases its genetic diversity, and negative selection removes those alleles that are deleterious. Codon-based models of molecular evolution are able to infer signatures of selection from alignments of homologous sequences by estimating the relative rates of synonymous (dS) and non-synonymous substitutions (dN). Datamonkey (http://www.datamonkey.org) provides a user-friendly web interface to a wide collection of state-of-the-art statistical techniques for estimating dS and dN and identifying codons and lineages under selection, even in the presence of recombinant sequences.
Antiviral Research Center, Department of Pathology, University of California San Diego, La Jolla, CA, USA.
Art F Y
AF
Poon
Simon D W
SD
Frost
Sergei L Kosakovsky
SL
Pond
D001483:Base Sequence; D019295:Computational Biology / Q000379:methods*; D019143:Evolution, Molecular; D020869:Gene Expression Profiling; D014644:Genetic Variation; D020407:Internet; D008969:Molecular Sequence Data; D010802:Phylogeny; D012641:Selection, Genetic; D017422:Sequence Analysis, DNA; D012984:Software; D014584:User-Computer Interface