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Bioinformatics Advance Access originally published online on August 30, 2005
Bioinformatics 2005 21(21):3951-3958; doi:10.1093/bioinformatics/bti651
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© The Author 2005. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions{at}oxfordjournals.org

Negative correlation between compositional symmetries and local recombination rates

Liang Chen 1 and Hongyu Zhao 2,3,*

1Department of Molecular, Cellular and Developmental Biology, Yale University New Haven, CT, USA
2Department of Epidemiology and Public Health, Yale University New Haven, CT, USA
3Department of Genetics, Yale University New Haven, CT, USA

*To whom correspondence should be addressed at 60 College Street, New Haven, CT 06520-8034, USA

Although still not much understood, the universal reverse complement symmetry in genomes may contain much information about the genome. In this article, under the hypothesis that recombination rate variations may be related to the high order DNA structure, we studied the association between local recombination rates and local symmetry levels in mouse, rat and human. We found significant negative correlations between recombination rates and reverse complement compositional symmetries in these three organisms. This negative correlation pattern also held at individual chromosome levels when data only from each individual chromosome was analyzed.

Contact: hongyu.zhao{at}yale.edu

Received on June 6, 2005; revised on August 25, 2005; accepted on August 26, 2005

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