"The identifiability of covarion models in phylogenetics," with E. S. Allman, to appear, IEEE/ACM Transactions in Computational Biology and Bioinformatics. PDF
"Identifiability of a Markovian model of molecular evolution with Gamma-distributed rates,'' with
E. S. Allman and C. Ane, Advances in Applied Probability, 40 no. 1 (2008), 229--249. PDF
"Identifying evolutionary trees and substitution parameters for the general Markov model with invariable sites,'' with E. S. Allman, Mathematical Biosciences, 211 no.1 (2008), 18--33. PDF
"Molecular phylogenetics from an algebraic viewpoint,'' with E. S. Allman, Statistica Sinica, 17 no. 4 (2007), 1299--1316. PDF
"Phylogenetic ideals and varieties for the general Markov model,'' with E. S. Allman,
Advances in Applied Mathematics, 20 no. 2 (2008), 127--148. PDF
"Phylogenetic invariants,'' with E. S. Allman, in Reconstructing Evolution: New Mathematical and Computational Advances, ed. by O. Gascuel and M. Steel. Oxford University Press, 2007, 108--147. PDF
"Phylogenetics,'' with E. S. Allman, in Modeling and Simulation of Biological Networks, ed. by R. Laubenbacher. Proceedings of
Symposia in Applied Mathematics, American Mathematical Society,
2007. PDF
"The identifiability of tree topology for phylogenetic models,
including covarion and mixture models,'' with E. S. Allman, Journal
of Computational Biology, 13, (2006), 1101--1113. PDF
"Phylogenetic invariants for stationary base composition,'' with E. S. Allman,
Journal of Symbolic Computation, 41 (2006), 138--150. PDF
"Quartets and parameter recovery for the
general Markov model of sequence mutation,'' with E. S. Allman,
Applied Mathematics Research Express, 4 (2004), 107--131. PDF
"Phylogenetic invariants for the general Markov model
of sequence mutation,'' with E. S. Allman, Mathematical
Biosciences, 186 (2003), 113--144. PDF