Dr Stephane Hue MSc PhD

Assistant Professor in Phylodynamics


I am a computational biologist specialised in viral evolution and molecular epidemiology. My interests are in reconstructing transmission dynamics on the basis of viral gene sequences.

After graduating at the University Paul Sabatier in Toulouse, France, I moved to the United Kingdom to complete a Masters in Medical Molecular Microbiology at the University of Nottingham. This was followed by a PhD in the molecular epidemiology of HIV-1 at University College London, under the supervision of Prof. Deenan Pillay. After completing postdoctoral positions at the University of Oxford and University College London, I have joined the School in 2014 where I am holding n assistant professor position.




I have been teaching viral evolution, molecular epidemiology and phylogenetics to undergraduate and graduate students since 2008.


I primarily study the changing trends of the UK HIV epidemic using advanced phylodynamic  frameworks. Central to this work is my involvement with the UK HIV Drug Resistance Database, a national repositry of HIV sequences routinely generated for genotypic antiretroviral resistance testing.

My work involves the implementation of statistical models in phylogenetic studies, particularly in the context of reconstructing time and spatial trends of viral transmissions. I also have expertise in the application of molecular models for the analysis of selective constrains on genomic sequences.

While my research activities are heavily oriented towards the study of HIV-1, I have also applied my skills to a broad range of viruses, with a recent focus on dengue virus. 

Research areas

  • Drug resistance
  • Viruses


  • Bioinformatics
  • Genomics
  • Molecular epidemiology
  • Virology

Disease and Health Conditions

  • Dengue
  • Infectious disease


  • European Union


  • Fiji
  • Singapore
  • United Kingdom
  • Vietnam

Other interests

  • Antiretroviral Therapy
  • Centre for the Mathematical Modelling of Infectious Diseases
  • Evolution
  • HIV
  • Infectious Diseases
  • Next Generation Sequencing
  • Phylogenetics
  • host virus interactions
  • molecualr biology
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