Ho, Simon - University of Sydney - School of Biological Sciences

研究领域

I am a computational evolutionary biologist interested in molecular clocks, evolutionary rates, phylogenetic methods, phylogenomics, and ancient DNA. I joined the School of Life and Environmental Sciences at the University of Sydney in 2010. I previously did postdoctoral research with Lindell Bromham at the Australian National University and with Beth Shapiro and Peter Holland at the University of Oxford. I completed a D.Phil. degree in 2006 at the University of Oxford under the supervision of Andrew Rambaut, Alan Cooper, Alexei Drummond, and Richard Fortey. I was a Commonwealth Scholar and EPA Cephalosporin Scholar at Linacre College throughout my doctorate. My M.Sc. Research (2003) and B.Sc. Honours (2002) were completed under the supervision of Lars Jermiin at the University of Sydney.

近期论文

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Duchene, S., Duchene, D., Di Giallonardo, F., Eden, J., Geoghegan, J., Holt, K., Ho, S., Holmes, E. (2016). Cross-validation to select Bayesian hierarchical models in phylogenetics. BMC Evolutionary Biology, 16(1), 1-8. [More Information] Duchene, S., Foster, C., Ho, S. (2016). Estimating the number and assignment of clock models in analyses of multigene datasets. Bioinformatics, 32(9), 1281-1285. [More Information] Ritchie, A., Lo, N., Ho, S. (2016). Examining the sensitivity of molecular species delimitations to the choice of mitochondrial marker. Organisms Diversity and Evolution, 16(3), 467-480. [More Information] Martin, M., Vieira, F., Ho, S., Wales, N., Schubert, M., Seguin-Orlando, A., Ristaino, J., Gilbert, M. (2016). Genomic Characterization of a South American Phytophthora Hybrid Mandates Reassessment of the Geographic Origins of Phytophthora infestans. Molecular Biology and Evolution, 33(2), 478-491. [More Information] Lee, M., Ho, S. (2016). Molecular clocks. Current Biology, 26(10), 399-402. [More Information] Lo, N., Tong, K., Rose, H., Ho, S., Beninati, T., Low, D., Matsumoto, T., Maekawa, K. (2016). Multiple evolutionary origins of Australian soil-burrowing cockroaches driven by climate change in the Neogene. Proceedings of the Royal Society B, 283(1825), 1-8. [More Information] Vargas, S., Jensen, M., Ho, S., Mobaraki, A., Broderick, D., Mortimer, J., Whiting, S., Miller, J., Prince, R., Bell, I., et al (2016). Phylogeography, Genetic Diversity, and Management Units of Hawksbill Turtles in the Indo-Pacific. Journal of Heredity: an international journal of genomic and evolutionary diversity, 107(3), 199-213. [More Information] Ho, S., Chen, A., Lins, L., Duchene, D., Lo, N. (2016). The Genome as an Evolutionary Timepiece. Genome Biology and Evolution, in press. [More Information] Luo, A., Lan, H., Ling, C., Zhang, A., Shi, L., Ho, S., Zhu, C. (2015). A simulation study of sample size for DNA barcoding. Ecology and Evolution, 5(24), 5869-5879. [More Information] Ho, S., Tong, K., Foster, C., Ritchie, A., Lo, N., Crisp, M. (2015). Biogeographic calibrations for the molecular clock. Biology Letters, 11(9), 1-7. [More Information] Tong, K., Duchene, S., Ho, S., Lo, N. (2015). Comment on "Phylogenomics resolves the timing and pattern of insect evolution". Science, 349(6427), 487-487. [More Information] Paraskevis, D., Angelis, K., Magiorkinis, G., Kostaki, E., Ho, S., Hatzakis, A. (2015). Dating the origin of hepatitis B virus reveals higher substitution rate and adaptation on the branch leading to F/H genotypes. Molecular Phylogenetics and Evolution, 93, 44-54. [More Information] Duchene, S., Ho, S., Holmes, E. (2015). Declining transition/transversion ratios through time reveal limitations to the accuracy of nucleotide substitution models. BMC Evolutionary Biology, 15(1), 1-10. [More Information] Molak, M., Suchard, M., Ho, S., Bellman, D., Shapiro, B. (2015). Empirical calibrated radiocarbon sampler: A tool for incorporating radiocarbon-date and calibration error into Bayesian phylogenetic analyses of ancient DNA. Molecular Ecology Resources, 15(1), 81-86. [More Information] Duchene, D., Duchene, S., Holmes, E., Ho, S. (2015). Evaluating the adequacy of molecular clock models using posterior predictive simulations. Molecular Biology and Evolution, 32(11), 2986-2995. [More Information] Morin, P., Parsons, K., Archer, F., Avila-Arcos, M., Barrett-Lennard, L., Dalla Rosa, L., Duchene, S., Durban, J., Ellis, G., Ferguson, S., Ho, S., et al (2015). Geographic and temporal dynamics of a global radiation and diversification in the killer whale. Molecular Ecology, 24(15), 3964-3979. [More Information] Thornhill, A., Ho, S., Kulheim, C., Crisp, M. (2015). Interpreting the modern distribution of Myrtaceae using a dated molecular phylogeny. Molecular Phylogenetics and Evolution, 93, 29-43. [More Information] Duchene, S., Ho, S. (2015). Mammalian genome evolution is governed by multiple pacemakers. Bioinformatics, 31(13), 2061-2065. [More Information] Alexander, M., Ho, S., Molak, M., Barnett, R., Carlborg, O., Dorshorst, B., Honaker, C., Besnier, F., Wahlberg, P., Dobney, K., et al (2015). Mitogenomic analysis of a 50-generation chicken pedigree reveals a rapid rate of mitochondrial evolution and evidence for paternal mtDNA inheritance. Biology Letters, 11(10), 1-4. [More Information] Lu, L., Ge, D., Chesters, D., Ho, S., Ma, Y., Li, G., Wen,, Z., Wu, Y., Wang, J., Xia, L., et al (2015). Molecular phylogeny and the underestimated species diversity of the endemic white-bellied rat (Rodentia: Muridae: Niviventer) in Southeast Asia and China. Zoologica Scripta, 44(5), 475-494. [More Information]