DNA Segmentation as A Model Selection Process

Details DNA Segmentation as A Model Selection Process DNA Segmentation as A Model Selection Process

2001-04-05

arxiv.org/abs/physics/0104027v1

in RECOMB01: Proceedings of the Fifth Annual International Conference on Computational Biology, pp.201-210 (ACM Press, 2001)

Physics

Biological Physics

7 pages, 4 figures, Proceedings of the Fifth Annual International Conference of Computational Molecular Biology (RECOMB 2001),

Scientific paper

Previous divide-and-conquer segmentation analyses of DNA sequences do not provide a satisfactory stopping criterion for the recursion. This paper proposes that segmentation be considered as a model selection process. Using the tools in model selection, a limit for the stopping criterion on the relaxed end can be determined. The Bayesian information criterion, in particular, provides a much more stringent stopping criterion than what is currently used. Such a stringent criterion can be used to delineate larger DNA domains. A relationship between the stopping criterion and the average domain size is empirically determined, which may aid in the determination of isochore borders.

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