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Evolutionary Bioinformatics

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FORS-D Analysis in P. falciparum can Differentiate Classes of Genes Under Selection

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Publication Date: 20 Mar 2011

Type: Original Research

Journal: Evolutionary Bioinformatics

Citation: Evolutionary Bioinformatics 2011:7 21-29

doi: 10.4137/EBO.S6609

Abstract

FORS-D is a measure of the contribution of base order to the stem loop potential of a nucleic acid sequence and can also give information on evolutionary pressures on sequences to move away from secondary structure. Negative FORS-D values in a gene are associated with exons and nucleotide substitutions such as SNPs. An analysis of P. falciparum genes under selection pressure shows a correlation between negative FORS-D values and SNP density for genes that drug targets but not for drug transporters or antigenic variation genes. Analysis of the dhfr gene shows that a majority of rare mutations that associate with drug resistance also fall into regions with negative FORS-D values. These data suggest that FORS-D values might be predictors for drug target genes and drug resistance mutations in these genes.



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