Elements of information theory
Elements of information theory
Combining phylogenetic and hidden Markov models in biosequence analysis
RECOMB '03 Proceedings of the seventh annual international conference on Research in computational molecular biology
Computational identification of evolutionarily conserved exons
RECOMB '04 Proceedings of the eighth annual international conference on Resaerch in computational molecular biology
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We construct several score functions for use in locating unusually conserved regions in a genome-wide search of aligned DNA from two species. We test these functions on regions of the human genome aligned to the mouse genome. These score functions are derived from properties of neutrally evolving sites on the mouse and human genome, and can be adjusted to the local background rate of conservation. The aim of these functions is to try to identify regions of the human genome that are conserved by evolutionary selection, because they have an important function, rather than by chance. We use them to get a very rough estimate of the amount of DNA in the human genome that is under selection.