- rtREV: an amino acid substitution matrix for inference of retrovirus and reverse transcriptase phylogenyMatthew W Dimmic
Biophysics Research Division, University of Michigan, 930 North University Avenue, Ann Arbor, MI 48109 1055, USA
J Mol Evol 55:65-73. 2002..We provide evidence that rtREV is a more realistic evolutionary model for analyses of the pol gene, although it is inapplicable to analyses involving the gag gene...
- Dimerization in aminergic G-protein-coupled receptors: application of a hidden-site class model of evolutionOrkun S Soyer
Department of Chemistry, University of Michigan, Ann Arbor, Michigan 48109, USA
Biochemistry 42:14522-31. 2003..On the basis of these findings, we propose an experimentally testable dimerization mechanism, involving interactions among different combinations of these helices in different families of aminergic GPCRs...
- Detecting coevolving amino acid sites using Bayesian mutational mappingMatthew W Dimmic
Department of Biological Statistics and Computational Biology, Cornell University Ithaca, NY 13101, USA
Bioinformatics 21:i126-35. 2005..A coevolutionary Markov model for codon substitution is also described, and this model is used as the basis of several test statistics...