Lam, Tsan Yuk Tommy

BSc, PhD
Assistant Professor (joint appointment with Department of Civil Engineering)
Division of Public Health Laboratory Sciences
Contact Information
Tel: 3917 9062
Email: This email address is being protected from spambots. You need JavaScript enabled to view it.


Dr Tommy Lam received his BSc (Bioinformatics) and PhD (Molecular Virology) in The University of Hong Kong, and had postdoctoral training in Pennsylvania State University and University of Oxford. His main research interest is the evolution, epidemiology and ecology of infectious diseases. He uses integrative genomic approach to determine the patterns, drivers and mechanisms of the emergence of pathogens at human-animal interface including influenza virus and Middle East respiratory syndrome coronavirus, as well as some bacterial pathogens and their antibiotic resistance emergence. He is also leading the development of several computational methods and tools for the genomic analysis in the research community.

Dr Lam received Novartis Vaccines Award for Epidemiology of Infectious Diseases from International Society for Infectious Diseases in 2008, and the Newton Research Fellowship from Royal Society UK in 2010. He received National Science and Technology Progress Award (Special Award, 2017) from State Council of the People’s Republic of China. He has been ranked top 1% scholars at HKU based on Essential Science Indicators between 2016-2018.

HKU Scholars Hub: Lam, Tsan Yuk Tommy


Selected Publications  (Pub Med Search)

  1. Rodríguez-Nevado C, Lam TT, Holmes EC, Pagán I. "The impact of host genetic diversity on virus evolution and emergence." Ecology Letters (2018) 21:253-263.
  2. Yu G, Smith D, Zhu H, Guan Y, Lam TT#. “ggtree: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data” Methods in Ecology and Evolution (2017)8(1): 28-36. #correspondence
  3. Lam TT, Zhu H, Guan Y, Holmes EC. ”Genomic Analysis of the Emergence, Evolution and Spread of Human Respiratory RNA Viruses” Annual Review of Genomics and Human Genetics (2016) 17.
  4. Sabir JSM*, Lam TT*, Ahmed MMM*, Li L*, Shen Y, Abo-Aba SEM, Qureshi MI, Abu-Zaid M, Zhang Y, Khiyami MA, Alharbi NS, Hajrah NH, Sabir MJ, Mutwakil MHZ, Kabli SA, Alsulaimany FAS, Obaid AY, Zhou B, Smith DK, Holmes EC, Zhu H, Guan Y. ”Co-circulation of three camel coronavirus species and recombination of MERS-CoVs in Saudi Arabia” Science (2016) 351:81-4.
  5. Lam TT*, Zhou B*, Wang J*, Chai Y*, Shen Y*, Chen X*, Ma C, Hong W, Chen Y, Zhang Y, Duan L, Chen P, Jiang J, Zhang Y, Li L, Poon L, Webby R, Smith D, Leung G, Peiris M, Holmes E, Guan Y, Zhu H. "Dissemination, divergence and establishment of H7N9 influenza viruses in China" Nature, (2015) 522: 102-105.
  6. Lam TT*, Wang J*, Shen Y*, Zhou B, Duan L, Cheung CL, Ma C, Lycett SJ, Leung CY, Chen X, Li L, Hong W, Chai Y, Zhou L, Liang H, Ou Z, Liu Y, Farooqui A, Kelvin DJ, Poon LL, Smith DK, Pybus OG, Leung GM, Shu Y, Webster RG, Webby RJ, Peiris JS, Rambaut A, Zhu H, Guan Y. "The genesis and source of the H7N9 influenza viruses causing human infections in China" Nature,(2013) 502: 241-244.
  7. Lam TT, Chong YL, Shi M, Hon CC, Li J, Martin DP, Tang JW, Mok CK, Shih SR, Yip CW, Jiang J, Hui RK, Pybus OG, Holmes EC, Leung FC. “Systematic phylogenetic analysis of influenza A virus reveals many novel mosaic genome segments.” Infection Genetics and Evolution,(2013) S1567-1348(13)00088-9.
  8. Ng SC, Lam EF, Lam TT, Chan Y, Law W, Tse PC, Kamm MA, Sung JJ, Chang FK, Wu JC. "Effect of Probiotic Bacteria on the Intestinal Microbiota in Irritable Bowel Syndrome" Journal of Gastroenterology and Hepatology, (2013) 28(10):1624-31.
  9. Lam TT, Hon CC, Lemey P, Pybus OG, Shi M, Tun HM, Li J, Jiang J, Holmes EC, Leung FCC. “Phylodynamics of H5N1 avian influenza virus in Indonesia” Molecular Ecology, (2012). 21(12):3062-77.
  10. Lam TT, Ip HS, Ghedin E, Wentworth DE, Halpin RA, Stockwell TB, Spiro DJ, Dusek RJ, Bortner JB, Hoskins J, Bales BD,Yparraguirre DR, Holmes EC. “Migratory flyway and geographical distance are barriers to the gene flow of influenza virus among North American birds” Ecology Letters, (2012). 15(1):24-33.
  11. Lam TT*, Zhu H*, Wang J, Smith DK, Holmes EC, Webster RG, Webby R, Peiris JM & Guan Y. “Reassortment events among swine influenza A viruses in China: implications for the origin of the 2009 influenza pandemic” Journal of Virology, (2011). 85(19):10279-85
  12. Lam TT, Hon CC, Tang JW. “Use of phylogenetics in the molecular epidemiology and evolutionary studies of viral infections” Critical Reviews in Clinical Laboratory Sciences,(2010). 47(1):5-49.
  13. Tee KK*, Lam TT*, Chan YF, Bible JM, Kamarulzaman A, Tong CY, Takebe Y, Pybus OG. “Evolutionary Genetics of Human Enterovirus 71: Origin, Population Dynamics, Natural Selection and Periodicity” Journal of Virology, (2010). 84(7):3339-50.
  14. Lam TT, Hon CC, Pybus OG, Sergei KP, Wong TY, Yip CW, Zeng F, Leung FC.“ Evolutionary and transmission dynamics of reassortant H5N1 influenza virus in Indonesia.” PLoS Pathogens, (2008). 22;4(8):e1000130 Joomla 3.3 Templates