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Items: 1 to 50 of 77

1.

The Impact of Cross-Species Gene Flow on Species Tree Estimation.

Jiao X, Flouris T, Rannala B, Yang Z.

Syst Biol. 2020 Jan 24. pii: syaa001. doi: 10.1093/sysbio/syaa001. [Epub ahead of print]

PMID:
31977022
2.

A Bayesian Implementation of the Multispecies Coalescent Model with Introgression for Phylogenomic Analysis.

Flouri T, Jiao X, Rannala B, Yang Z.

Mol Biol Evol. 2020 Apr 1;37(4):1211-1223. doi: 10.1093/molbev/msz296.

3.

Species Tree Inference with BPP Using Genomic Sequences and the Multispecies Coalescent.

Flouri T, Jiao X, Rannala B, Yang Z.

Mol Biol Evol. 2018 Oct 1;35(10):2585-2593. doi: 10.1093/molbev/msy147.

4.

The Spectre of Too Many Species.

Leaché AD, Zhu T, Rannala B, Yang Z.

Syst Biol. 2019 Jan 1;68(1):168-181. doi: 10.1093/sysbio/syy051.

5.

Bayesian species identification under the multispecies coalescent provides significant improvements to DNA barcoding analyses.

Yang Z, Rannala B.

Mol Ecol. 2017 Jun;26(11):3028-3036. doi: 10.1111/mec.14093. Epub 2017 Apr 3.

PMID:
28281309
6.

Efficient Bayesian Species Tree Inference under the Multispecies Coalescent.

Rannala B, Yang Z.

Syst Biol. 2017 Sep 1;66(5):823-842. doi: 10.1093/sysbio/syw119.

PMID:
28053140
7.

Critically evaluating the theory and performance of Bayesian analysis of macroevolutionary mixtures.

Moore BR, Höhna S, May MR, Rannala B, Huelsenbeck JP.

Proc Natl Acad Sci U S A. 2016 Aug 23;113(34):9569-74. doi: 10.1073/pnas.1518659113. Epub 2016 Aug 10.

8.

Conceptual issues in Bayesian divergence time estimation.

Rannala B.

Philos Trans R Soc Lond B Biol Sci. 2016 Jul 19;371(1699). pii: 20150134. doi: 10.1098/rstb.2015.0134.

9.

A Glance at Recombination Hotspots in the Domestic Cat.

Alhaddad H, Zhang C, Rannala B, Lyons LA.

PLoS One. 2016 Feb 9;11(2):e0148710. doi: 10.1371/journal.pone.0148710. eCollection 2016.

10.

Unguided species delimitation using DNA sequence data from multiple Loci.

Yang Z, Rannala B.

Mol Biol Evol. 2014 Dec;31(12):3125-35. doi: 10.1093/molbev/msu279. Epub 2014 Oct 1.

11.

Bayesian inference of shared recombination hotspots between humans and chimpanzees.

Wang Y, Rannala B.

Genetics. 2014 Dec;198(4):1621-8. doi: 10.1534/genetics.114.168377. Epub 2014 Sep 26.

12.

Bayesian species delimitation can be robust to guide-tree inference errors.

Zhang C, Rannala B, Yang Z.

Syst Biol. 2014 Nov;63(6):993-1004. doi: 10.1093/sysbio/syu052. Epub 2014 Aug 5. No abstract available.

13.

The functional significance of common polymorphisms in zinc finger transcription factors.

Lockwood SH, Guan A, Yu AS, Zhang C, Zykovich A, Korf I, Rannala B, Segal DJ.

G3 (Bethesda). 2014 Jun 26;4(9):1647-55. doi: 10.1534/g3.114.012195.

14.

The influence of gene flow on species tree estimation: a simulation study.

Leaché AD, Harris RB, Rannala B, Yang Z.

Syst Biol. 2014 Jan 1;63(1):17-30. doi: 10.1093/sysbio/syt049. Epub 2013 Aug 13.

PMID:
23945075
15.

Improved reversible jump algorithms for Bayesian species delimitation.

Rannala B, Yang Z.

Genetics. 2013 May;194(1):245-53. doi: 10.1534/genetics.112.149039. Epub 2013 Mar 15.

16.

Meiotic gene-conversion rate and tract length variation in the human genome.

Padhukasahasram B, Rannala B.

Eur J Hum Genet. 2013 Feb 27. doi: 10.1038/ejhg.2013.30. [Epub ahead of print]

17.

Molecular phylogenetics: principles and practice.

Yang Z, Rannala B.

Nat Rev Genet. 2012 Mar 28;13(5):303-14. doi: 10.1038/nrg3186. Review.

PMID:
22456349
18.

Robustness of compound Dirichlet priors for Bayesian inference of branch lengths.

Zhang C, Rannala B, Yang Z.

Syst Biol. 2012 Oct;61(5):779-84. Epub 2012 Feb 10.

PMID:
22328570
19.

Tail paradox, partial identifiability, and influential priors in Bayesian branch length inference.

Rannala B, Zhu T, Yang Z.

Mol Biol Evol. 2012 Jan;29(1):325-35. doi: 10.1093/molbev/msr210. Epub 2011 Sep 2.

PMID:
21890479
20.

Bayesian population genomic inference of crossing over and gene conversion.

Padhukasahasram B, Rannala B.

Genetics. 2011 Oct;189(2):607-19. doi: 10.1534/genetics.111.130195. Epub 2011 Aug 11.

21.

The accuracy of species tree estimation under simulation: a comparison of methods.

Leaché AD, Rannala B.

Syst Biol. 2011 Mar;60(2):126-37. doi: 10.1093/sysbio/syq073. Epub 2010 Nov 18.

PMID:
21088009
22.

Bayesian species delimitation using multilocus sequence data.

Yang Z, Rannala B.

Proc Natl Acad Sci U S A. 2010 May 18;107(20):9264-9. doi: 10.1073/pnas.0913022107. Epub 2010 May 3.

23.

Population genomic inference of recombination rates and hotspots.

Wang Y, Rannala B.

Proc Natl Acad Sci U S A. 2009 Apr 14;106(15):6215-9. doi: 10.1073/pnas.0900418106. Epub 2009 Apr 2.

24.

Bayesian inference of fine-scale recombination rates using population genomic data.

Wang Y, Rannala B.

Philos Trans R Soc Lond B Biol Sci. 2008 Dec 27;363(1512):3921-30. doi: 10.1098/rstb.2008.0172.

25.

Identification and analysis of evolutionary selection pressures acting at the molecular level in five forkhead subfamilies.

Fetterman CD, Rannala B, Walter MA.

BMC Evol Biol. 2008 Sep 24;8:261. doi: 10.1186/1471-2148-8-261.

26.

Phylogenetic inference using whole genomes.

Rannala B, Yang Z.

Annu Rev Genomics Hum Genet. 2008;9:217-31. doi: 10.1146/annurev.genom.9.081307.164407. Review.

PMID:
18767964
27.

TP53 gene mutations of lung cancer patients in upper northern Thailand and environmental risk factors.

Bumroongkit K, Rannala B, Traisathit P, Srikummool M, Wongchai Y, Kangwanpong D.

Cancer Genet Cytogenet. 2008 Aug;185(1):20-7. doi: 10.1016/j.cancergencyto.2008.04.009.

PMID:
18656689
28.

Bayesian inference of errors in ancient DNA caused by postmortem degradation.

Mateiu LM, Rannala BH.

Mol Biol Evol. 2008 Jul;25(7):1503-11. doi: 10.1093/molbev/msn095. Epub 2008 Apr 16.

PMID:
18420593
29.

Summarizing a posterior distribution of trees using agreement subtrees.

Cranston KA, Rannala B.

Syst Biol. 2007 Aug;56(4):578-90.

PMID:
17654363
30.
31.

Inferring speciation times under an episodic molecular clock.

Rannala B, Yang Z.

Syst Biol. 2007 Jun;56(3):453-66.

PMID:
17558967
32.
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34.
35.

Branch-length prior influences Bayesian posterior probability of phylogeny.

Yang Z, Rannala B.

Syst Biol. 2005 Jun;54(3):455-70.

PMID:
16012111
36.
37.
38.

Closing the gap between rocks and clocks.

Cranston K, Rannala B.

Heredity (Edinb). 2005 May;94(5):461-2. No abstract available.

39.
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41.

The Bayesian revolution in genetics.

Beaumont MA, Rannala B.

Nat Rev Genet. 2004 Apr;5(4):251-61. Review. No abstract available.

PMID:
15131649
42.

Likelihood models of somatic mutation and codon substitution in cancer genes.

Yang Z, Ro S, Rannala B.

Genetics. 2003 Oct;165(2):695-705.

44.

Detecting correlation between characters in a comparative analysis with uncertain phylogeny.

Huelsenbeck JP, Rannala B.

Evolution. 2003 Jun;57(6):1237-47.

PMID:
12894932
45.

Bayesian inference of recent migration rates using multilocus genotypes.

Wilson GA, Rannala B.

Genetics. 2003 Mar;163(3):1177-91.

46.
47.

Identifiability of parameters in MCMC Bayesian inference of phylogeny.

Rannala B.

Syst Biol. 2002 Oct;51(5):754-60.

PMID:
12396589
48.

Disease surveillance in recombining pathogens: multilocus genotypes identify sources of human Coccidioides infections.

Fisher MC, Rannala B, Chaturvedi V, Taylor JW.

Proc Natl Acad Sci U S A. 2002 Jun 25;99(13):9067-71.

49.

Finding genes influencing susceptibility to complex diseases in the post-genome era.

Rannala B.

Am J Pharmacogenomics. 2001;1(3):203-21. Review.

PMID:
12083968
50.

DMLE+: Bayesian linkage disequilibrium gene mapping.

Reeve JP, Rannala B.

Bioinformatics. 2002 Jun;18(6):894-5.

PMID:
12075030

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