Type

Journal Article

Authors

Mario A Fares

Subjects

Mathematics

Topics
software biology sliding window size probability statistical analysis detect selective constraints evolution

SWAPSC: sliding window analysis procedureto detect selective constraints (2004)

Abstract Sliding-window analysis procedure to detectselective constraints (SWAPSC) is a software system todissect the constraints on the evolution of protein-codinggenes.The programestimates rates of nucleotide substitutionsat specific codon regions in each branch of a phylogenetictree. The program uses several sets of simulated sequencealignments to estimate the probability of synonymous and nonsynonymous nucleotide substitutions. Thereafter, a statistical analysis is conducted to determine the optimum windowsize to detect selective constraints. Finally, the optimum window size is slid along the real alignment and a test for significance of the estimated number of synonymous and non-synonymous nucleotide substitutions in each sliding step is conducted. A number of friendly useful output files is generated.
Collections Ireland -> Maynooth University -> Subject = Science & Engineering: Biology
Ireland -> Maynooth University -> Subject = Science & Engineering
Ireland -> Maynooth University -> Type = Article
Ireland -> Maynooth University -> Status = Published
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Full list of authors on original publication

Mario A Fares

Experts in our system

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Mario Ali Fares
Trinity College Dublin
Total Publications: 43