Advances in Time Estimation Methods for Molecular Data

Tree of Life Reveals Clock-Like Speciation and Diversification

(2015) S. Blair Hedges et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evaluating the Adequacy of Molecular Clock Models Using Posterior Predictive Simulations

(2015) David A. Duchêne et al.   MOLECULAR BIOLOGY AND EVOLUTION

A Protocol for Diagnosing the Effect of Calibration Priors on Posterior Time Estimates: A Case Study for the Cambrian Explosion of Animal Phyla

(2015) Fabia U. Battistuzzi et al.   MOLECULAR BIOLOGY AND EVOLUTION

Do missing data influence the accuracy of divergence-time estimation with BEAST?

(2015) Yuchi Zheng et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Bayesian molecular clock dating of species divergences in the genomics era

(2015) Mario dos Reis et al.   NATURE REVIEWS GENETICS

Response to Comment on "Whole-genome analyses resolve early branches in the tree of life of modern birds"

(2015) J. Cracraft et al.   SCIENCE

Science in Congress: Deceptive statistics--Response

(2015) A. A. Rosenberg et al.   SCIENCE

Fast Dating Using Least-Squares Criteria and Algorithms

(2015) Thu-Hien To et al.   SYSTEMATIC BIOLOGY

Between a Rock and a Hard Place: Applications of the “Molecular Clock” in Systematic Biology

(2015) Charles D. Bell   SYSTEMATIC BOTANY

Measurably evolving pathogens in the genomic era

(2015) Roman Biek et al.   TRENDS IN ECOLOGY & EVOLUTION

Dating Tips for Divergence-Time Estimation

(2015) Joseph E. O’Reilly et al.   TRENDS IN GENETICS

Prospects for Building Large Timetrees Using Molecular Data with Incomplete Gene Coverage among Species

(2014) A. Filipski et al.   MOLECULAR BIOLOGY AND EVOLUTION

Molecular-clock methods for estimating evolutionary rates and timescales

(2014) Simon Y. W. Ho et al.   MOLECULAR ECOLOGY

The fossilized birth-death process for coherent calibration of divergence-time estimates

(2014) T. A. Heath et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phylogenomics resolves the timing and pattern of insect evolution

(2014) B. Misof et al.   SCIENCE

Whole-genome analyses resolve early branches in the tree of life of modern birds

(2014) E. D. Jarvis et al.   SCIENCE

The changing face of the molecular evolutionary clock

(2014) Simon Y.W. Ho   TRENDS IN ECOLOGY & EVOLUTION

Resolution of deep angiosperm phylogeny using conserved nuclear genes and estimates of early divergence times

(2014) Liping Zeng et al.   Nature Communications

ClockstaR: choosing the number of relaxed-clock models in molecular phylogenetic analysis

(2013) Sebastián Duchêne et al.   BIOINFORMATICS

MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0

(2013) Koichiro Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

Molecular dating of phylogenies by likelihood methods: A comparison of models and a new information criterion

(2013) Emmanuel Paradis   MOLECULAR PHYLOGENETICS AND EVOLUTION

Dating Phylogenies with Sequentially Sampled Tips

(2013) Tanja Stadler et al.   SYSTEMATIC BIOLOGY

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

(2013) Nicolas Lartillot et al.   SYSTEMATIC BIOLOGY

treePL: divergence time estimation using penalized likelihood for large phylogenies

(2012) Stephen A. Smith et al.   BIOINFORMATICS

Estimating divergence times in large molecular phylogenies

(2012) K. Tamura et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Total-Evidence Approach to Dating with Fossils, Applied to the Early Radiation of the Hymenoptera

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

Fast and Slow Implementations of Relaxed-Clock Methods Show Similar Patterns of Accuracy in Estimating Divergence Times

(2011) Fabia U. Battistuzzi et al.   MOLECULAR BIOLOGY AND EVOLUTION

A distance-based least-square method for dating speciation events

(2011) Xuhua Xia et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The Cambrian Conundrum: Early Divergence and Later Ecological Success in the Early History of Animals

(2011) D. H. Erwin et al.   SCIENCE

Integrating Fossil Preservation Biases in the Selection of Calibrations for Molecular Divergence Time Estimation

(2011) Alex Dornburg et al.   SYSTEMATIC BIOLOGY

Performance of Relaxed-Clock Methods in Estimating Evolutionary Divergence Times and Their Credibility Intervals

(2010) Fabia U. Battistuzzi et al.   MOLECULAR BIOLOGY AND EVOLUTION

A Bayesian Phylogenetic Method to Estimate Unknown Sequence Ages

(2010) B. Shapiro et al.   MOLECULAR BIOLOGY AND EVOLUTION

An examination of phylogenetic models of substitution rate variation among lineages

(2009) S. Y.W. Ho   Biology Letters

Accounting for Calibration Uncertainty in Phylogenetic Estimation of Evolutionary Divergence Times

(2009) Simon Y. W. Ho et al.   SYSTEMATIC BIOLOGY

Birth-death prior on phylogeny and speed dating

(2008) Orjan Akerborg et al.   BMC EVOLUTIONARY BIOLOGY