Fares, Mario A. (2004) SWAPSC: sliding window analysis procedure to detect selective constraints. Bioinformatics, 20 (16). pp. 2867-2868.

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Abstract

Sliding-window analysis procedure to detect selective constraints (SWAPSC) is a software system to dissect the constraints on the evolution of protein-coding genes.The programestimates rates of nucleotide substitutions at specific codon regions in each branch of a phylogenetic tree. The program uses several sets of simulated sequence alignments 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.

Item Type:	Article
Keywords:	sliding window, selective constraints,
Academic Unit:	Faculty of Science and Engineering > Biology
Item ID:	318
Depositing User:	Dr. Mario Fares
Date Deposited:	15 Jun 2006
Journal or Publication Title:	Bioinformatics
Publisher:	Oxford University Press
Refereed:	Yes
URI:	http://bioinformatics.oxfordjournals.org...
Use Licence:	This item is available under a Creative Commons Attribution Non Commercial Share Alike Licence (CC BY-NC-SA). Details of this licence are available here

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