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Number of items: 92.
Article
Álvarez-Carretero, S;
Tamuri, AU;
Battini, M;
Nascimento, FF;
Carlisle, E;
Asher, RJ;
Yang, Z;
... Dos Reis, M; + view all
(2022)
A species-level timeline of mammal evolution integrating phylogenomic data.
Nature
, 602
pp. 263-267.
10.1038/s41586-021-04341-1.
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Álvarez-Carretero, S;
Goswami, A;
Yang, Z;
Dos Reis, M;
(2019)
Bayesian Estimation of Species Divergence Times Using Correlated Quantitative Characters.
Systematic Biology
, 68
(6)
pp. 967-986.
10.1093/sysbio/syz015.
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Angelis, K;
Álvarez-Carretero, S;
Dos Reis, M;
Yang, Z;
(2018)
An evaluation of different partitioning strategies for Bayesian estimation of species divergence times.
Systematic Biology
, 67
(1)
pp. 61-77.
10.1093/sysbio/syx061.
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Angelis, K;
dos Reis, M;
Yang, Z;
(2014)
Bayesian Estimation of Nonsynonymous/Synonymous Rate Ratios for Pairwise Sequence Comparisons.
Molecular Biology and Evolution
, 31
(7)
1902 - 1913.
10.1093/molbev/msu142.
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Anisimova, M;
Bielawski, J;
Dunn, K;
Yang, Z;
(2007)
Phylogenomic analysis of natural selection pressure in Streptococcus genomes.
BMC Evolutionary Biology
, 7
(August)
, Article 154. 10.1186/1471-2148-7-154.
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Barba-Montoya, J;
Dos Reis, M;
Schneider, H;
Donoghue, PCJ;
Yang, Z;
(2018)
Constraining uncertainty in the timescale of angiosperm evolution and the veracity of a Cretaceous Terrestrial Revolution.
New Phytologist
, 218
(2)
pp. 819-834.
10.1111/nph.15011.
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Barba-Montoya, J;
dos Reis, M;
Yang, Z;
(2017)
Comparison of different strategies for using fossil calibrations to generate the time prior in Bayesian molecular clock dating.
Molecular Phylogenetics and Evolution
, 114
pp. 386-400.
10.1016/j.ympev.2017.07.005.
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Brown, RP;
Yang, Z;
(2011)
Rate variation and estimation of divergence times using strict and relaxed clocks.
BMC Evolutionary Biology
, 11
(Septem)
, Article 271. 10.1186/1471-2148-11-271.
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Chen, M-S;
Liu, X;
Yang, Z;
Zhao, H;
Shukle, RH;
Stuart, JJ;
Hulbert, S;
(2010)
Unusual conservation among genes encoding small secreted salivary gland proteins from a gall midge.
BMC Evolutionary Biology
, 10
(Septem)
, Article 296. 10.1186/1471-2148-10-296.
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Dalquen, D;
Zhu, T;
Yang, Z;
(2017)
Maximum likelihood implementation of an isolation-with-migration model for three species.
Systematic Biology
, 66
(3)
pp. 379-398.
10.1093/sysbio/syw063.
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Dos Reis, M;
Donoghue, PC;
Yang, Z;
(2014)
Neither phylogenomic nor palaeontological data support a Palaeogene origin of placental mammals.
Biology Letters
, 10
(1)
, Article 20131003. 10.1098/rsbl.2013.1003.
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Dos Reis, M;
Gunnell, GF;
Barba-Montoya, J;
Wilkins, A;
Yang, Z;
Yoder, AD;
(2018)
Using Phylogenomic Data to Explore the Effects of Relaxed Clocks and Calibration Strategies on Divergence Time Estimation: Primates as a Test Case.
Systematic Biology
, 67
(4)
pp. 594-615.
10.1093/sysbio/syy001.
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Dos Reis, M;
Thawornwattana, Y;
Angelis, K;
Telford, MJ;
Donoghue, PC;
Yang, Z;
(2015)
Uncertainty in the Timing of Origin of Animals and the Limits of Precision in Molecular Timescales.
Current Biology
, 25
(22)
pp. 2939-2850.
10.1016/j.cub.2015.09.066.
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Dos Reis, M;
Zhu, T;
Yang, Z;
(2014)
The Impact of the Rate Prior on Bayesian Estimation of Divergence Times with Multiple Loci.
Systematic Biology
, 63
(4)
555 - 565.
10.1093/sysbio/syu020.
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Emes, RD;
Yang, Z;
(2008)
Duplicated Paralogous Genes Subject to Positive Selection in the Genome of Trypanosoma brucei.
PLOS ONE
, 3
(5)
, Article e2295. 10.1371/journal.pone.0002295.
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Finger, N;
Farleigh, K;
Bracken, JT;
Leaché, AD;
François, O;
Yang, Z;
Flouri, T;
... Blair, C; + view all
(2021)
Genome-scale data reveal deep lineage divergence and a complex demographic history in the Texas horned lizard (Phrynosoma cornutum) throughout the southwestern and central US.
Genome Biology and Evolution
10.1093/gbe/evab260.
(In press).
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Flouri, Tomas;
Huang, Jun;
Jiao, Xiyun;
Kapli, Paschalia;
Rannala, Bruce;
Yang, Ziheng;
(2022)
Correction to: Bayesian Phylogenetic Inference using Relaxed-clocks and the Multispecies Coalescent.
[Corrigendum].
Molecular Biology and Evolution
, 39
(12)
, Article msac246. 10.1093/molbev/msac246.
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Flouri, Tomáš;
Huang, Jun;
Jiao, Xiyun;
Kapli, Paschalia;
Rannala, Bruce;
Yang, Ziheng;
(2022)
Bayesian phylogenetic inference using relaxed-clocks and the multispecies coalescent.
Molecular Biology and Evolution
10.1093/molbev/msac161.
(In press).
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Flouri, Tomáš;
Jiao, Xiyun;
Huang, Jun;
Rannala, Bruce;
Yang, Ziheng;
(2023)
Efficient Bayesian inference under the multispecies coalescent with migration.
PNAS (Proceedings of the National Academy of Sciences)
, 120
(44)
, Article e2310708120. 10.1073/pnas.2310708120.
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Flouris, T;
Jiao, X;
Rannala, B;
Yang, Z;
(2018)
Species Tree Inference with BPP Using Genomic Sequences and the Multispecies Coalescent.
Molecular Biology and Evolution
, 35
(10)
pp. 2585-2593.
10.1093/molbev/msy147.
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Halliday, TJD;
dos Reis, M;
Tamuri, AU;
Ferguson-Gow, H;
Yang, Z;
Goswami, A;
(2019)
Rapid morphological evolution in placental mammals post-dates the origin of the crown group.
Proceedings of the Royal Society B: Biological Sciences
, 286
(1898)
10.1098/rspb.2018.2418.
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Huang, J;
Bennett, J;
Flouri, T;
Yang, Z;
(2021)
Phase Resolution of Heterozygous Sites in Diploid Genomes is Important to Phylogenomic Analysis under the Multispecies Coalescent Model.
Systematic Biology
, Article syab047. 10.1093/sysbio/syab047.
(In press).
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Huang, J;
Liu, Y;
Zhu, T;
Yang, Z;
(2021)
The asymptotic behavior of bootstrap support values in molecular phylogenetics.
Systematic Biology
, 70
(4)
pp. 774-785.
10.1093/sysbio/syaa100.
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Huang, J;
Flouris, T;
Yang, Z;
(2020)
A simulation study to examine the information content in phylogenomic datasets under the multispecies coalescent model.
Molecular Biology and Evolution
, 37
(11)
pp. 3211-3224.
10.1093/molbev/msaa166.
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Hurley, IA;
Mueller, RL;
Dunn, KA;
Schmidt, EJ;
Friedman, M;
Ho, RK;
Prince, VE;
... Coates, MI; + view all
(2007)
A new time-scale for ray-finned fish evolution.
Proceedings of the Royal Society B - Biological Sciences
, 274
(1609)
pp. 489-498.
10.1098/rspb.2006.3749.
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Ji, Jiayi;
Jackson, Donavan J;
Leaché, Adam D;
Yang, Ziheng;
(2022)
Power of Bayesian and heuristic tests to detect cross-species introgression with reference to gene flow in the Tamias quadrivittatus group of North American chipmunks.
Systematic Biology
, Article syac077. 10.1093/sysbio/syac077.
(In press).
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Ji, Jiayi;
Kapli, Paschalia;
Flouri, Tomas;
Yang, Ziheng;
(2025)
The Impact of Sequencing and Genotyping Errors on Bayesian Analysis of Genomic Data under the Multispecies Coalescent Model.
Molecular Biology and Evolution
, 42
(8)
, Article msaf184. 10.1093/molbev/msaf184.
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Ji, Jiayi;
Roberts, Thomas;
Flouri, Tomas;
Yang, Ziheng;
(2025)
Inference of Cross‑Species Gene Flow Using Genomic Data Depends
on the Methods: Case Study of Gene Flow in Drosophila.
Systematic Biology
10.1093/sysbio/syaf019.
(In press).
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Jiao, X;
Flouris, T;
Yang, Z;
(2021)
Multispecies Coalescent and its Applications to Infer Species Phylogenies and Cross-Species Gene Flow.
National Science Review
(In press).
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Jiao, X;
Thomas, F;
Rannala, B;
Yang, Z;
(2020)
The Impact of Cross-Species Gene Flow on Species Tree Estimation.
Systematic Biology
, 69
(5)
pp. 830-847.
10.1093/sysbio/syaa001.
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Jiao, X;
Yang, Z;
(2021)
Defining Species When There is Gene Flow.
Systematic Biology
, 70
(1)
pp. 108-119.
10.1093/sysbio/syaa052.
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Kapli, P;
Yang, Z;
Telford, M;
(2020)
Phylogenetic tree building in the genomic age.
Nature Reviews Genetics
, 21
pp. 428-444.
10.1038/s41576-020-0233-0.
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Leache, AD;
Harris, RB;
Rannala, B;
Yang, Z;
(2014)
The Influence of Gene Flow on Species Tree Estimation: A Simulation Study.
Systematic Biology
, 63
(1)
pp. 17-30.
10.1093/sysbio/syt049.
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Leaché, AD;
Zhu, T;
Rannala, B;
Yang, Z;
(2019)
The Spectre of Too Many Species.
Systematic Biology
, 68
(1)
pp. 168-181.
10.1093/sysbio/syy051.
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Matsumoto, Tomotaka;
Yamashita, Haruka;
Kawashima, Kent;
Abdulla Daanaa, Hassan Sibroe;
Yang, Ziheng;
Akashi, Hiroshi;
(2025)
Recent codon preference reversals in the Drosophila melanogaster lineage.
Proceedings of the National Academy of Sciences
(In press).
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Moody, Edmund RR;
Alvarez-Carretero, Sandra;
Mahendrarajah, Tara A;
Clark, James W;
Betts, Holly C;
Dombrowski, Nina;
Szantho, Lenard L;
... Donoghue, Philip CJ; + view all
(2024)
The nature of the last universal common ancestor and its impact on the early Earth system.
Nature Ecology & Evolution
10.1038/s41559-024-02461-1.
(In press).
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Morris, JL;
Puttick, MN;
Clark, JW;
Edwards, D;
Kenrick, P;
Pressel, S;
Wellman, CH;
... Donoghue, PCJ; + view all
(2018)
The timescale of early land plant evolution.
PNAS - Proceedings of the National Academy of Sciences of the United States of America
, 115
(10)
E2274-E2283.
10.1073/pnas.1719588115.
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Nascimento, FF;
Reis, MD;
Yang, Z;
(2017)
A biologist's guide to Bayesian phylogenetic analysis.
Nature Ecology and Evolution
, 1
(10)
pp. 1446-1454.
10.1038/s41559-017-0280-x.
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Ostrander, EA;
Wang, GD;
Larson, G;
Vonholdt, BM;
Davis, BW;
Jagannathan, V;
Hitte, C;
... Dog10K Consortium; + view all
(2019)
Dog10K: an international sequencing effort to advance
studies of canine domestication, phenotypes and health.
National Science Review
, 6
(4)
pp. 810-824.
10.1093/nsr/nwz049.
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Pavón-Vázquez, Carlos J;
Rana, Qaantah;
Farleigh, Keaka;
Crispo, Erika;
Zeng, Mimi;
Liliah, Jeevanie;
Mulcahy, Daniel;
... Blair, Christopher; + view all
(2024)
Gene Flow and Isolation in the Arid Nearctic Revealed by Genomic Analyses of Desert Spiny Lizards.
Systematic Biology
, 73
(2)
pp. 323-342.
10.1093/sysbio/syae001.
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Santos, Sarah HD;
Figueiró, Henrique V;
Flouri, Tomas;
Ramalho, Emiliano;
Cullen, Laury;
Yang, Ziheng;
Murphy, William J;
(2025)
Massive Inter-species Introgression Overwhelms Phylogenomic Relationships Among Jaguar, Lion, and Leopard.
Systematic Biology
10.1093/sysbio/syaf021.
(In press).
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Schmid, K;
Yang, Z;
(2008)
The Trouble with Sliding Windows and the Selective Pressure in BRCA1.
PLOS ONE
, 3
(11)
, Article e3746. 10.1371/journal.pone.0003746.
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Shi, C-M;
Yang, Z;
(2018)
Coalescent-based analyses of genomic sequence data provide a robust resolution of phylogenetic relationships among major groups of gibbons.
Molecular Biology and Evolution
, 35
(1)
pp. 159-179.
10.1093/molbev/msx277.
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Thawornwattana, Y;
Seixas, F;
Yang, Z;
Mallet, J;
(2023)
Major patterns in the introgression history of Heliconius butterflies.
eLife
, 12
, Article RP90656. 10.7554/eLife.90656.
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Thawornwattana, Yuttapong;
Flouri, Tomas;
Mallet, James;
Yang, Ziheng;
(2025)
Inference of Gene Flow between Species from Genomic Data When the Mode, Direction, and Lineages are Misspecified.
Molecular Biology and Evolution
, 42
(6)
, Article msaf121. 10.1093/molbev/msaf121.
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Thawornwattana, Yuttapong;
Huang, Jun;
Flouri, Tomá Š;
Mallet, James;
Yang, Ziheng;
(2023)
Inferring the Direction of Introgression Using Genomic Sequence Data.
Molecular Biology and Evolution
, 40
(8)
, Article msad178. 10.1093/molbev/msad178.
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Thawornwattana, Yuttapong;
Seixas, Fernando A;
Mallet, James;
Yang, Ziheng;
(2022)
Full‐likelihood genomic analysis clarifies a complex history 2 of species divergence and introgression: the example of the 3 erato‐sara group of Heliconius butterflies.
Systematic Biology
10.1093/sysbio/syac009.
(In press).
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Thawornwattana, Y;
Dalquen, D;
Yang, Z;
(2018)
Designing Simple and Efficient Markov Chain Monte Carlo Proposal Kernels.
Bayesian Analysis
, 13
(4)
pp. 1037-1063.
10.1214/17-BA1084.
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Thawornwattana, Y;
Dalquen, D;
Yang, Z;
(2018)
Coalescent analysis of phylogenomic data confidently resolves the species relationships in the Anopheles gambiae species complex.
Molecular Biology and Evolution
, 35
(10)
pp. 2512-2527.
10.1093/molbev/msy158.
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Tiley, George P;
Flouri, Tomás;
Jiao, Xiyun;
Poelstra, Jelmer W;
Xu, Bo;
Zhu, Tianqi;
Rannala, Bruce;
... Yang, Ziheng; + view all
(2023)
Estimation of species divergence times in presence of cross-species gene flow.
Systematic Biology
, Article syad015. 10.1093/sysbio/syad015.
(In press).
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Tiley, GP;
Poelstra, JW;
Dos Reis, M;
Yang, Z;
Yoder, AD;
(2020)
Molecular clocks without rocks: new solutions for old problems.
Trends in Genetics
, 36
(11)
pp. 845-856.
10.1016/j.tig.2020.06.002.
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Vamathevan, JJ;
Hasan, S;
Emes, RD;
Amrine-Madsen, H;
Rajagopalan, D;
Topp, SD;
Kumar, V;
... Holbrook, JD; + view all
(2008)
The role of positive selection in determining the molecular cause of species differences in disease.
BMC Evolutionary Biology
, 8
(Octobe)
, Article 273. 10.1186/1471-2148-8-273.
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Weber, CC;
Perron, U;
Casey, D;
Yang, Z;
Goldman, N;
(2020)
Ambiguity Coding Allows Accurate Inference of Evolutionary Parameters from Alignments in an Aggregated State-Space.
Systematic Biology
10.1093/sysbio/syaa036.
(In press).
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Yang, Ziheng;
(2022)
Inference of gene flow between species under misspecified models.
Molecular Biology and Evolution
, 39
(12)
, Article msac237. 10.1093/molbev/msac237.
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Yang, Ziheng;
(2022)
RADseq data reveal a lack of admixture in a mouse lemur contact zone contrary to previous microsatellite results.
Proceedings of the Royal Society B: Biological Sciences
, 289
, Article 20220596. 10.1098/rspb.2022.0596.
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Yang, Ziheng;
Álvarez-Carretero, Sandra;
Paschalia, Kapli;
(2023)
Beginner's guide on the use of PAML to detect positive selection.
Molecular Biology and Evolution
, 40
(4)
, Article msad041. 10.1093/molbev/msad041.
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Yang, Ziheng;
Flouri, Tomáš;
(2022)
Estimation of Cross-Species Introgression Rates using Genomic Data Despite Model Unidentifiability.
Molecular Biology and Evolution
10.1093/molbev/msac083.
(In press).
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Yang, Ziheng;
Kapli, paschalia;
Telford, max;
Katari, I;
(2023)
DNA Sequences Are as Useful as Protein Sequences for Inferring
Deep Phylogenies.
Systematic Biology
, Article syad036. 10.1093/sysbio/syad036.
(In press).
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Yang, Z;
(2015)
The BPP program for species tree estimation and species delimitation.
Current Zoology
, 61
(5)
pp. 854-865.
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Yang, Z;
(2010)
The Timetree of Life.
[Review].
The Quarterly Review of Biology
, 85
(3)
pp. 360-361.
10.1086/655063.
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Yang, Z;
(2010)
A likelihood ratio test of speciation with gene flow using genomic sequence data.
Genome Biology and Evolution
, 2
, Article evq011v1. 10.1093/gbe/evq011.
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Yang, Z;
Donoghue, PCJ;
(2016)
Dating species divergences using rocks and clocks.
Philosophical Transactions of the Royal Society B: Biological Sciences
, 371
(1699)
, Article 20150126. 10.1098/rstb.2015.0126.
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Yang, Z;
dos reis, M;
Donoghue, P;
(2015)
Bayesian molecular clock dating of species divergences in the genomics era.
Nature Reviews: Genetics
10.1038/nrg.2015.8.
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Yang, Z;
Feng, Y;
Xu, H;
Liu, J;
Hu, X;
Yang, Z;
Xiao, R-P;
(2021)
Functional and adaptive significance of promoter mutations that affect divergent myocardial expressions of TRIM72 in primates.
Molecular Biology and Evolution
, 38
(7)
pp. 2930-2945.
10.1093/molbev/msab083.
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Yang, Z;
Flouris, T;
Jiao, X;
Rannala, B;
(2020)
A Bayesian implementation of the multispecies coalescent model with introgression for phylogenomic analysis.
Molecular Biology and Evolution
, 37
(4)
pp. 1211-1223.
10.1093/molbev/msz296.
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Yang, Z;
Rannala, B;
(2017)
Efficient Bayesian species tree inference under the multispecies coalescent.
Systematic Biology
, 66
(5)
pp. 823-842.
10.1093/sysbio/syw119.
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Yang, Z;
Rannala, B;
(2017)
Bayesian Species Identification under the Multispecies Coalescent Provides Significant Improvements to DNA Barcoding Analyses.
Molecular Ecology
, 26
(11)
pp. 3028-3036.
10.1111/mec.14093.
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Yang, Z;
Rannala, B;
(2014)
Unguided Species Delimitation Using DNA Sequence Data from Multiple Loci.
Molecular Biology and Evolution
, 31
(12)
pp. 3125-3135.
10.1093/molbev/msu279.
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Yang, Z;
Rannala, B;
(2012)
Molecular phylogenetics: principles and practice.
Nature Reviews Genetics
, 13
(5)
pp. 303-314.
10.1038/nrg3186.
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Yang, Z;
Rodríguez, CE;
(2013)
Searching for efficient Markov chain Monte Carlo proposal kernels.
Proceedings of the National Academy of Sciences
, 110
(48)
pp. 19307-19312.
10.1073/pnas.1311790110.
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Yang, Z;
Warnock, RCM;
Donoghue, PCJ;
(2017)
Testing the molecular clock using mechanistic models of both fossil preservation and molecular evolution.
Proceedings of the Royal Society B: Biological Sciences
, 284
, Article 20170227. 10.1098/rspb.2017.0227.
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Yang, Z;
Xu, B;
(2016)
Challenges in species tree estimation under the multispecies coalescent model.
Genetics
, 204
(4)
pp. 1353-1368.
10.1534/genetics.116.190173.
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Yang, Z;
Zhu, T;
(2018)
Bayesian selection of misspecified models is overconfident and may cause spurious posterior probabilities for phylogenetic trees.
Proceedings of the National Academy of Sciences of the United States of America
, 115
(8)
pp. 1854-1859.
10.1073/pnas.1712673115.
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Yoder, AD;
Chan, LM;
dos Reis, M;
Larsen, PA;
Campbell, CR;
Rasoloarison, R;
Barrett, M;
... Yang, Z; + view all
(2014)
Molecular Evolutionary Characterization of a V1R Subfamily Unique to Strepsirrhine Primates.
Genome Biology and Evolution
, 6
(1)
pp. 213-227.
10.1093/gbe/evu006.
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Yoshida, I;
Sugiura, W;
Shibata, J;
Ren, F;
Yang, Z;
Tanaka, H;
(2011)
Change of Positive Selection Pressure on HIV-1 Envelope Gene Inferred by Early and Recent Samples.
PLOS ONE
, 6
(4)
, Article e18630. 10.1371/journal.pone.0018630.
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Zeng, L;
Gu, Z;
Xu, M;
Zhao, N;
Zhu, W;
Yonezawa, T;
Liu, T;
... Zhong, Y; + view all
(2017)
Discovery of a high-altitude ecotype and ancient lineage of Arabidopsis thaliana from Tibet.
Science Bulletin
, 62
(24)
pp. 1628-1630.
10.1016/j.scib.2017.10.007.
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Zhang, C;
Rannala, B;
Yang, Z;
(2014)
Bayesian Species Delimitation Can Be Robust to Guide-Tree Inference Errors.
Systematic Biology
, 63
(6)
993 - 1004.
10.1093/sysbio/syu052.
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Zhu, Tianqi;
Flouri, Tomáš;
Yang, Ziheng;
(2022)
A simulation study to examine the impact of recombination on phylogenomic inferences under the multispecies coalescent model.
Molecular Ecology
, 31
(10)
pp. 2814-2839.
10.1111/mec.16433.
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Zhu, Tianqi;
Wang, Zhen;
Yang, Ziheng;
(2025)
The power of coalescent methods for inferring recent and ancient gene flow in endangered Bactrian camels.
Proceedings of the National Academy of Sciences (PNAS)
, 122
(31)
, Article e2410949122. 10.1073/pnas.2410949122.
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Zhu, T;
Dos Reis, M;
Yang, Z;
(2015)
Characterization of the Uncertainty of Divergence Time Estimation under Relaxed Molecular Clock Models Using Multiple Loci.
Systematic Biology
, 64
(2)
pp. 267-280.
10.1093/sysbio/syu109.
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Zhu, T;
Yang, Z;
(2021)
Complexity of the simplest species tree problem.
Molecular Biology and Evolution
10.1093/molbev/msab009.
(In press).
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Book chapter
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Flouri, T;
Rannala, B;
Yang, Z;
(2020)
A tutorial on the use of BPP for species tree estimation and species delimitation.
In: Scornavacca, C and Delsuc, F and Galtier, N, (eds.)
Phylogenetics in the Genomic Era.
(5.6:1-5.6:16).
Self published
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Rannala, B;
Leache, A;
Edwards, S;
Yang, Z;
(2020)
The multispecies coalescent model and species tree inference.
In: Scornavacca, C and Delsuc, F and Galtier, N, (eds.)
Phylogenetics in the Genomic Era.
(3.3:1-3.3:21).
Self Published
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Rannala, B;
Yang, Z;
(2020)
Species delimitation.
In: Scornavacca, C and Delsuc, F and Galtier, N, (eds.)
Phylogenetics in the Genomic Era.
(5.5:1-5.5:18).
Self published
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Yang, Z;
(2018)
Molecular Phylogenetics.
In:
Oxford Bibliographies Evolutionary biology.
Oxford University Press: New York, NY, USA.
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Yang, Z;
(2016)
AWF Edwards and the origin of Bayesian phylogenetics.
In: Winther, RG, (ed.)
Phylogenetic Inference, Selection Theory, and History of Science: Selected Papers of A. W. F. Edwards with Commentaries.
(pp. 352-362).
Cambridge University Press: Cambridge, UK.
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Yang, Z;
(2016)
Bayesian phylogenetic inference.
In: Kliman, RM, (ed.)
Encyclopaedia of Evolutionary Biology.
(pp. 137-140).
Elsevier
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Yang, Z;
Rannala, B;
(2013)
Molecular clock dating.
In: Losos, JB, (ed.)
The Princeton Guide to Evolution.
(pp. 67-74).
Princeton University Press: Princeton, NJ, USA.
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Working / discussion paper
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Ji, Jiayi;
Jackson, Donavan;
Leaché, Adam;
Yang, Ziheng;
(2021)
Significant cross-species gene flow detected in the Tamias quadrivittatus group of North American chipmunks.
bioRxiv: Cold Spring Harbor, NY, USA.
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Lu, Bingxin;
Curtius, Kit;
Graham, Trevor;
Yang, Ziheng;
Barnes, Chris;
(2022)
CNETML: Maximum likelihood inference of phylogeny from copy number profiles of spatio-temporal samples.
bioRxiv: Amsterdam, Netherlands.
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Poelstra, Jelmer;
Montero, Karina;
Lüdemann, Jan;
Yang, Ziheng;
Rakotondranary, Jacques;
Hohenlohe, Paul;
Stetter, Nadine;
... Yoder, Anne; + view all
(2021)
RADseq data reveal a lack of admixture in a mouse lemur contact zone contrary to previous microsatellite results.
bioRxiv: Cold Spring Harbor, NY, USA.
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Thawornwattana, Yuttapong;
Seixas, Fernando;
Yang, Ziheng;
Mallet, James;
(2021)
Full-likelihood genomic analysis clarifies a complex history of species divergence and introgression: the example of the erato-sara group of Heliconius butterflies.
bioRxiv: Cold Spring Harbor, NY, USA.
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