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References from Factors influencing the accuracy and precision in dating single gene trees. Local targets link to admitted publications; unresolved targets remain external evidence.
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The Taming of the Skew: Estimating Proper Confidence Intervals for Divergence Dates
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The Implications of Incongruence between Gene Tree and Species Tree Topologies for Divergence Time Estimation
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Gene transfers can date the tree of life
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A Dirichlet Process Prior for Estimating Lineage-Specific Substitution Rates
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The changing face of the molecular evolutionary clock
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Simulating and detecting autocorrelation of molecular evolutionary rates among lineages
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Accuracy of rate estimation using relaxed-clock models with a critical focus on the early metazoan radiation
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Dating single gene trees in the age of phylogenomics
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The Rise of Statistical Phylogenetics
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Whole-genome analyses resolve early branches in the tree of life of modern birds
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Molecular evolution and tempo of amplification of human LINE-1 retrotransposons since the origin of primates
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Performance of a Divergence Time Estimation Method under a Probabilistic Model of Rate Evolution
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Viruses and mobile elements as drivers of evolutionary transitions
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A molecular timescale for vertebrate evolution
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Advances in Time Estimation Methods for Molecular Data
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TimeTree: A Resource for Timelines, Timetrees, and Divergence Times
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An examination of the constancy of the rate of molecular evolution
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A mixed relaxed clock model
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A general comparison of relaxed molecular clock models
10.1093/molbev/msm193 · 2007 · External reference
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Earth BioGenome Project: Sequencing life for the future of life
10.1073/pnas.1720115115 · 2018 · External reference
Evaluation of Bayesian models of substitution rate evolution—parental guidance versus mutual independence
10.1093/sysbio/syr009 · 2011 · External reference
Code and data for molecular dating benchmark based on real and simulated Primates gene trees
10.5281/zenodo.14000603 · 2024 · External reference
Supplementary information for “Factors influencing the accuracy and precision in dating single gene trees
10.5281/zenodo.15203103 · 2024 · External reference
RelTime Rates Collapse to a Strict Clock When Estimating the Timeline of Animal Diversification
10.1093/gbe/evx079 · 2017 · External reference
Contemporaneous radiations of fungi and plants linked to symbiosis
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Some heteroskedasticity-consistent covariance matrix estimators with improved finite sample properties
10.1016/0304-4076(85)90158-7 · 1985 · External reference
Primary Structure and Evolution of Cytochrome C
10.1073/pnas.50.4.672 · 1963 · External reference
Modeling Substitution Rate Evolution across Lineages and Relaxing the Molecular Clock
10.1093/gbe/evae199 · 2024 · External reference
Gene Tree Discordance Causes Apparent Substitution Rate Variation
10.1093/sysbio/syw018 · 2016 · External reference
Comparing Patterns of Nucleotide Substitution Rates Among Chloroplast Loci Using the Relative Ratio Test
10.1093/genetics/146.1.393 · 1997 · External reference
Lateral gene transfer and the nature of bacterial innovation
10.1038/35012500 · 2000 · External reference
Accelerated Evolution of the Prdm9 Speciation Gene across Diverse Metazoan Taxa
10.1371/journal.pgen.1000753 · 2009 · External reference
Tracing the LINEs of human evolution
10.1073/pnas.152346799 · 2002 · External reference
Generation length for mammals
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Large Punctuational Contribution of Speciation to Evolutionary Divergence at the Molecular Level
10.1126/science.1129647 · 2006 · External reference
Heterotachy and functional shift in protein evolution
10.1080/1521654031000123330 · 2003 · External reference
The evolutionary ecology of the major histocompatibility complex
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Late acquisition of mitochondria by a host with chimaeric prokaryotic ancestry
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Dates from the molecular clock: how wrong can we be?
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10.1093/nar/gkz369 · 2019 · External reference
Using Phylogenomic Data to Explore the Effects of Relaxed Clocks and Calibration Strategies on Divergence Time Estimation: Primates as a Test Case
10.1093/sysbio/syy001 · 2018 · External reference
Uncertainty in the Timing of Origin of Animals and the Limits of Precision in Molecular Timescales
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Approximate Likelihood Calculation on a Phylogeny for Bayesian Estimation of Divergence Times
10.1093/molbev/msr045 · 2011 · External reference
The unbearable uncertainty of Bayesian divergence time estimation
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The Impact of the Rate Prior on Bayesian Estimation of Divergence Times with Multiple Loci
10.1093/sysbio/syu020 · 2014 · External reference
Under-parameterized Model of Sequence Evolution Leads to Bias in the Estimation of Diversification Rates from Molecular Phylogenies
10.1080/10635150500354647 · 2005 · External reference
Quantitative Immunochemistry and the Evolution of Primate Albumins: Micro-Complement Fixation
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Consequences of Secondary Calibrations on Divergence Time Estimates
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So many genes, so little time: A practical approach to divergence-time estimation in the genomic era
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Partitioning the Variation in Mammalian Substitution Rates
10.1093/oxfordjournals.molbev.a004231 · 2003 · External reference
Conditions under which distributions of edge length ratios on phylogenetic trees can be used to order evolutionary events
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Simple methods for testing the molecular evolutionary clock hypothesis
10.1093/genetics/135.2.599 · 1993 · External reference
Reliable Confidence Intervals for RelTime Estimates of Evolutionary Divergence Times
10.1093/molbev/msz236 · 2019 · External reference
Estimating the rate of evolution of the rate of molecular evolution
10.1093/oxfordjournals.molbev.a025892 · 1998 · External reference
Regression shrinkage and selection via the Lasso
10.1111/j.2517-6161.1996.tb02080.x · 1996 · External reference
Fast Dating Using Least-Squares Criteria and Algorithms
10.1093/sysbio/syv068 · 2016 · External reference
Scalable relaxed clock phylogenetic dating
10.1093/ve/vex025 · 2017 · External reference
Timing the origin of eukaryotic cellular complexity with ancient duplications
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Testing the molecular clock using mechanistic models of fossil preservation and molecular evolution
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Inconsistencies in Estimating the Age of HIV-1 Subtypes Due to Heterotachy
10.1093/molbev/msr266 · 2012 · External reference
Relaxed Molecular Clocks, the Bias–Variance Trade-off, and the Quality of Phylogenetic Inference
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Mutation rates differ among regions of the mammalian genome
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Evidence for higher rates of nucleotide substitution in rodents than in man
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PAML 4: phylogenetic analysis by maximum likelihood
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Ensembl 2018
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Characterization of the Uncertainty of Divergence Time Estimation under Relaxed Molecular Clock Models Using Multiple Loci
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Molecular disease, evolution, and genetic heterogeneity
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Molecules as documents of evolutionary history
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