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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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My co-authors and I had a very positive experience with the review and publication process in Evolutionary Bioinformatics.  The reviewers were rapid and on point, and publication was also rapid after we made the necessary revisions.
Professor Steven Salzberg (Director, Center for Computational Biology, Johns Hopkins University School of Medicine, Baltimore, MD, USA)
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