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Issue No. 06 - November/December (2011 vol. 8)
ISSN: 1545-5963
pp: 1667-1670
Tamir Tuller , Weizmann Institute of Science, Rehovot
Elchanan Mossel , Weizmann Institute of Science, Rehovot and University of California Berkeley, Berkeley
Markov models are extensively used in the analysis of molecular evolution. A recent line of research suggests that pairs of proteins with functional and physical interactions co-evolve with each other. Here, by analyzing hundreds of orthologous sets of three fungi and their co-evolutionary relations, we demonstrate that co-evolutionary assumption may violate the Markov assumption. Our results encourage developing alternative probabilistic models for the cases of extreme co-evolution.
Markov models, models of molecular evolution, co-evolution, phylogenetic reconstruction.

T. Tuller and E. Mossel, "Co-evolution Is Incompatible with the Markov Assumption in Phylogenetics," in IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 8, no. , pp. 1667-1670, 2010.
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