Our group combines techniques from dynamic modeling, systems biology and bioinformatics to better understand the immune response. Areas of focus include: 

B cell affinity maturation and large-scale Immunoglobulin (Ig) repertoire analysis

  • Analysis of B cell Immunoglobulin (Ig) repertoire data from next-generation sequencing
  • Methods to quantify immune selection based on analyzing patterns of Somatic Hypermutation (SHM) 
  • Modeling B cell affinity maturation and germinal center population dynamics


Immune signatures of human infection and vaccination

  • Mathematical models to understand how pathogen and host variation, cytokine environment and genetics shape the human dendritic cell response to influenza virus 
  • Quantification of pathway activities to infer influenza strain-specific mechanisms of immune antagonism 
  • Inference and comparison of genetic regulatory networks in order to identify novel antiviral transcription factors and regulatory connections 
  • Analysis of blood gene expression profiles to predict Flaviviruse (HCV and WNV) infection and therapy response