Relaxing the Molecular Clock to Different Degrees for Different Substitution Types

PhyloBayes MPI: Phylogenetic Reconstruction with Infinite Mixtures of Profiles in a Parallel Environment

(2013) Nicolas Lartillot et al.   SYSTEMATIC BIOLOGY

Bayesian Phylogenetics with BEAUti and the BEAST 1.7

(2012) Alexei J. Drummond et al.   MOLECULAR BIOLOGY AND EVOLUTION

Rate of de novo mutations and the importance of father’s age to disease risk

(2012) Augustine Kong et al.   NATURE

TimeTree2: species divergence times on the iPhone

(2011) S. Kumar et al.   BIOINFORMATICS

Comparison of methods for calculating conditional expectations of sufficient statistics for continuous time Markov chains

(2011) Paula Tataru et al.   BMC BIOINFORMATICS

JOINT RECONSTRUCTION OF DIVERGENCE TIMES AND LIFE-HISTORY EVOLUTION IN PLACENTAL MAMMALS USING A PHYLOGENETIC COVARIANCE MODEL

(2011) Nicolas Lartillot et al.   EVOLUTION

Summary Statistics for Endpoint-Conditioned Continuous-Time Markov Chains

(2011) Asger Hobolth et al.   JOURNAL OF APPLIED PROBABILITY

De novo DNA methylation: a germ cell perspective

(2011) Sébastien A. Smallwood et al.   TRENDS IN GENETICS

Mutation-selection models of coding sequence evolution with site-heterogeneous amino acid fitness profiles

(2010) N. Rodrigue et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Simulation from endpoint-conditioned, continuous-time Markov chains on a finite state space, with applications to molecular evolution

(2009) Asger Hobolth et al.   Annals of Applied Statistics

Is there an acceleration of the CpG transition rate during the mammalian radiation?

(2008) M. Peifer et al.   BIOINFORMATICS

A Markov chain Monte Carlo Expectation Maximization Algorithm for Statistical Analysis of DNA Sequence Evolution with Neighbor-Dependent Substitution Rates

(2008) Asger Hobolth   JOURNAL OF COMPUTATIONAL AND GRAPHICAL STATISTICS

Mutation-Selection Models of Codon Substitution and Their Use to Estimate Selective Strengths on Codon Usage

(2008) Z. Yang et al.   MOLECULAR BIOLOGY AND EVOLUTION