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Accounting for Errors in Data Improves Divergence Time Estimates in Single-cell Cancer Evolution.
- Published in:
- Molecular Biology & Evolution, 2022, v. 39, n. 8, p. 1, doi. 10.1093/molbev/msac143
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- Article
Estimating Epidemic Incidence and Prevalence from Genomic Data.
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- Molecular Biology & Evolution, 2019, v. 36, n. 8, p. 1804, doi. 10.1093/molbev/msz106
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- Article
Inferring Ancestral Recombination Graphs from Bacterial Genomic Data.
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- Genetics, 2017, v. 205, n. 2, p. 857, doi. 10.1534/genetics.116.193425
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- Article
Inferring Epidemiological Dynamics with Bayesian Coalescent Inference: The Merits of Deterministic and Stochastic Models.
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- Genetics, 2015, v. 199, n. 2, p. 595, doi. 10.1534/genetics.114.172791
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- Publication type:
- Article
Joint Inference of Microsatellite Mutation Models, Population History and Genealogies Using Transdimensional Markov Chain Monte Carlo.
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- Genetics, 2011, v. 188, n. 1, p. 151, doi. 10.1534/genetics.110.125260
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- Article
LinguaPhylo: A probabilistic model specification language for reproducible phylogenetic analyses.
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- PLoS Computational Biology, 2023, v. 19, n. 7, p. 1, doi. 10.1371/journal.pcbi.1011226
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- Article
The Molecular Population Genetics of HLV-1 Group O.
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- Genetics, 2004, v. 167, n. 3, p. 1059, doi. 10.1534/genetics.104.026666
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- Article
Estimating Mutation Parameters, Population History and Genealogy Simultaneously From Temporally Spaced Sequence Data.
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- Genetics, 2002, v. 161, n. 3, p. 1308, doi. 10.1093/genetics/161.3.1307
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- Article
Recursive algorithms for phylogenetic tree counting.
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- Algorithms for Molecular Biology, 2013, v. 8, n. 1, p. 2, doi. 10.1186/1748-7188-8-26
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- Publication type:
- Article
Bayesian random local clocks, or one rate to rule them all.
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- BMC Biology, 2010, v. 8, p. 114, doi. 10.1186/1741-7007-8-114
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- Article
Estimating the biodiversity of terrestrial invertebrates on a forested island using DNA barcodes and metabarcoding data.
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- Ecological Applications, 2019, v. 29, n. 4, p. N.PAG, doi. 10.1002/eap.1877
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- Publication type:
- Article
Influenza A Virus Migration and Persistence in North American Wild Birds.
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- PLoS Pathogens, 2013, v. 9, n. 8, p. 1, doi. 10.1371/journal.ppat.1003570
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- Article
BEAST 2: A Software Platform for Bayesian Evolutionary Analysis.
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- PLoS Computational Biology, 2014, v. 10, n. 4, p. 1, doi. 10.1371/journal.pcbi.1003537
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- Publication type:
- Article
Bayesian Phylogeography Finds Its Roots.
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- PLoS Computational Biology, 2009, v. 5, n. 9, p. 1, doi. 10.1371/journal.pcbi.1000520
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- Article
Synonymous Substitution Rates Predict HIV Disease Progression as a Result of Underlying Replication Dynamics.
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- PLoS Computational Biology, 2007, v. 3, n. 2, p. 282, doi. 10.1371/journal.pcbi.0030029
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- Article
Bayesian phylodynamics of avian influenza A virus H9N2 in Asia with time-dependent predictors of migration.
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- PLoS Computational Biology, 2019, v. 15, n. 8, p. 1, doi. 10.1371/journal.pcbi.1007189
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- Article
Use of Genomics to Track Coronavirus Disease Outbreaks, New Zealand.
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- 2021
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- journal article
Genomic Evidence of In-Flight Transmission of SARS-CoV-2 Despite Predeparture Testing.
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- Emerging Infectious Diseases, 2021, v. 27, n. 3, p. 687, doi. 10.3201/eid2703.204714
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- Publication type:
- Article
Genomic epidemiology reveals transmission patterns and dynamics of SARS-CoV-2 in Aotearoa New Zealand.
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- Nature Communications, 2020, v. 11, n. 1, p. 1, doi. 10.1038/s41467-020-20235-8
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- Publication type:
- Article
Phylodynamics reveals the role of human travel and contact tracing in controlling the first wave of COVID-19 in four island nations.
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- Virus Evolution, 2021, v. 7, n. 2, p. 1, doi. 10.1093/ve/veab052
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- Article
Evolutionary history of cotranscriptional editing in the paramyxoviral phosphoprotein gene.
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- Virus Evolution, 2021, v. 7, n. 1, p. 1, doi. 10.1093/ve/veab028
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- Publication type:
- Article
SANTA-SIM: simulating viral sequence evolution dynamics under selection and recombination.
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- Virus Evolution, 2019, v. 5, n. 1, p. N.PAG, doi. 10.1093/ve/vez003
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- Article
Evaluating a multigene environmental DNA approach for biodiversity assessment.
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- GigaScience, 2015, v. 4, n. 1, p. 1, doi. 10.1186/s13742-015-0086-1
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- Publication type:
- Article
How Accurate and Robust Are the Phylogenetic Estimates of Austronesian Language Relationships?
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- PLoS ONE, 2010, v. 5, n. 3, p. 1, doi. 10.1371/journal.pone.0009573
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- Publication type:
- Article
Simulating gene trees under the multispecies coalescent and time-dependent migration.
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- BMC Evolutionary Biology, 2013, v. 13, n. 1, p. 1, doi. 10.1186/1471-2148-13-44
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- Article
BEAST: Bayesian evolutionary analysis by sampling trees.
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- BMC Evolutionary Biology, 2007, v. 7, p. 214, doi. 10.1186/1471-2148-7-214
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- Publication type:
- Article
Divergence time estimates for major cephalopod groups: evidence from multiple genes.
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- Cladistics, 2006, v. 22, n. 1, p. 89, doi. 10.1111/j.1096-0031.2006.00086.x
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- Article
Guided Tree Topology Proposals for Bayesian Phylogenetic Inference.
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- Systematic Biology, 2012, v. 61, n. 1, p. 1, doi. 10.1093/sysbio/syr074
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- Publication type:
- Article
Calibrated Tree Priors for Relaxed Phylogenetics and Divergence Time Estimation.
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- Systematic Biology, 2012, v. 61, n. 1, p. 138, doi. 10.1093/sysbio/syr087
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- Publication type:
- Article
Evidence for Time Dependency of Molecular Rate Estimates.
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- Systematic Biology, 2007, v. 56, n. 3, p. 515, doi. 10.1080/10635150701435401
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- Publication type:
- Article
Bayesian Inference of Species Networks from Multilocus Sequence Data.
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- Molecular Biology & Evolution, 2018, v. 35, n. 2, p. 504, doi. 10.1093/molbev/msx307
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- Article
StarBEAST2 Brings Faster Species Tree Inference and Accurate Estimates of Substitution Rates.
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- Molecular Biology & Evolution, 2017, v. 34, n. 8, p. 2101, doi. 10.1093/molbev/msx126
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- Article
Phylodynamics with Migration: A Computational Framework to Quantify Population Structure from Genomic Data.
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- Molecular Biology & Evolution, 2016, v. 33, n. 8, p. 2102, doi. 10.1093/molbev/msw064
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- Article
A Stochastic Simulator of Birth–Death Master Equations with Application to Phylodynamics.
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- Molecular Biology & Evolution, 2013, v. 30, n. 6, p. 1480, doi. 10.1093/molbev/mst057
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- Article
Bayesian Selection of Nucleotide Substitution Models and Their Site Assignments.
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- Molecular Biology & Evolution, 2013, v. 30, n. 3, p. 669, doi. 10.1093/molbev/mss258
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- Article
Accurate Model Selection of Relaxed Molecular Clocks in Bayesian Phylogenetics.
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- Molecular Biology & Evolution, 2013, v. 30, n. 2, p. 239
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- Publication type:
- Article
Bayesian Phylogenetics with BEAUti and the BEAST 1.7.
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- Molecular Biology & Evolution, 2012, v. 29, n. 8, p. 1969, doi. 10.1093/molbev/mss075
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- Article
Model Averaging and Bayes Factor Calculation of Relaxed Molecular Clocks in Bayesian Phylogenetics.
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- Molecular Biology & Evolution, 2012, v. 29, n. 2, p. 751
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- Article
Estimating the Basic Reproductive Number from Viral Sequence Data.
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- Molecular Biology & Evolution, 2012, v. 29, n. 1, p. 347
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- Publication type:
- Article
A Bayesian Phylogenetic Method to Estimate Unknown Sequence Ages.
- Published in:
- Molecular Biology & Evolution, 2011, v. 28, n. 2, p. 879, doi. 10.1093/molbev/msq262
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- Article
Bayesian Inference of Species Trees from Multilocus Data.
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- Molecular Biology & Evolution, 2010, v. 27, n. 3, p. 570, doi. 10.1093/molbev/msp274
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- Publication type:
- Article
Accommodating the Effect of Ancient DNA Damage on Inferences of Demographic Histories.
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- Molecular Biology & Evolution, 2009, v. 26, n. 2, p. 245, doi. 10.1093/molbev/msn256
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- Article
mtDNA Variation Predicts Population Size in Humans and Reveals a Major Southern Asian Chapter in Human Prehistory.
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- Molecular Biology & Evolution, 2008, v. 25, n. 2, p. 468, doi. 10.1093/molbev/msm277
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- Publication type:
- Article
Phylogenetic Evidence for Deleterious Mutation Load in RNA Viruses and Its Contribution to Viral Evolution.
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- Molecular Biology & Evolution, 2007, v. 24, n. 3, p. 845, doi. 10.1093/molbev/msm001
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- Publication type:
- Article
Choosing Appropriate Substitution Models for the Phylogenetic Analysis of Protein-Coding Sequences.
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- Molecular Biology & Evolution, 2006, v. 23, n. 1, p. 7, doi. 10.1093/molbev/msj021
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- Publication type:
- Article
Time Dependency of Molecular Rate Estimates and Systematic Overestimation of Recent Divergence Times.
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- Molecular Biology & Evolution, 2005, v. 22, n. 7, p. 1561, doi. 10.1093/molbev/msi145
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- Publication type:
- Article
Accuracy of Rate Estimation Using Relaxed-ClockModels with a Critical Focus on the Early Metazoan Radiation.
- Published in:
- Molecular Biology & Evolution, 2005, v. 22, n. 5, p. 1355
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- Article
Impacts of DNA extraction and PCR on DNA metabarcoding estimates of soil biodiversity.
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- Methods in Ecology & Evolution, 2019, v. 10, n. 1, p. 120, doi. 10.1111/2041-210X.13086
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- Article
Fast Bayesian Inference of Phylogenies from Multiple Continuous Characters.
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- Systematic Biology, 2024, v. 73, n. 1, p. 102, doi. 10.1093/sysbio/syad067
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- Article
Novel Integrative Modeling of Molecules and Morphology across Evolutionary Timescales.
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- Systematic Biology, 2022, v. 71, n. 1, p. 208, doi. 10.1093/sysbio/syab054
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- Article