phylogenetic   analysis

Research                                                 Phylogenetic Programs                                  Contact information 

            1. Phylogenetics                                                     1. BEST  Liang Liu                  

            2. Coalescent theory                                              2. STAR and STEAC (Phybase)                                  lliu@oeb.harvard.edu

            3. Statistical computation                                       3. MPEST

Publications

Liu, L., L. Yu, D.K. Pearl, and S.V. Edwards. Estimating species phylogenies using coalescence times among sequences. Syst Biol, doi:10.1093/sysbio/syp031.

Liu, L., L. Yu, L. Kubatko, D. K. Pearl, and S.V. Edwards. Coalescent methods for estimating multilocus phylogenetic trees. Molecular Phylogenetics and Evolution, doi:10.1016/j.ympev.2009.05. 033.

Liu, L., and S. Edwards. Phylogenetic Analysis in the Anomaly Zone. Syst. Biol. 2009, 58(4):452-460.

Liu, L., L. Yu, and D.K. Pearl. Maximum tree - a consistent estimator of the species tree. Journal of mathematical biology. 2010, 60(1):95-106.

Yu, L., R. Yu, L. Liu. Quasi-likelihood for Right-Censored Data in the Generalized Linear Model. Communications in Statistics - Theory and Methods.

Liu, L. BEST: Bayesian estimation of species trees under the coalescent model. Bioinformatics 2008, 24(21):2542:2543.

Brumfield, R.T., L. Liu, D. Lum, and S.V. Edwards. Comparison of species tree methods for reconstructing the phylogeny of bearded manakins (Aves: Pipridae: Manacus) from multilocus sequence data. Syst. Biol.. 2008, 57(5):719-731.

Liu, L., D.K. Pearl, R.T. Brumfield, and S.V. Edwards. Estimating species trees using multiple-allele DNA sequence data. Evolution. 2008, 62(8):2080-2091.

Belfiore, N.M., L. Liu, and C. Moritz. Multilocus phylogenetics of a rapid radiation in the genus Thomomys (Rodentia: Geomyidae). Syst. Biol., 2008, 57:294-310.

Liu, L. and D.K. Pearl. Species trees from gene trees: reconstructing Bayesian posterior distributions of a species phylogeny using estimated gene tree distributions. Syst. Biol., 2007, 56:504-514.

Edwards, S.V., L. Liu., and D.K. Pearl. High resolution species trees without concatenation. Proceedings of the National Academy of Sciences (USA), 2007, 104:5936-5941.

Wolfe, A.D., C. P. Randle, L. Liu and K.E. Steiner. Phylogeny and biogeography of orobanchaceae. Folia Geobotanica, 2005, 40:115-125.

Liu, L. and G. Lu. Protective effect of protein-free supernatant of brain homogenate taken from hypoxia preconditioned mice on synaptosome membrane exposed to hypoxia. Chinese Journal of Neuroscience, 2001, 17:373-375.