Research Interests

We design algorithms to understand gene regulation and DNA damage and repair, to characterize disruptions of these processes in disease, and to discover therapeutic targets.

Computer Science

  • Algorithms
  • Machine learning
  • Data mining
Special interests:
  • combinatorial algorithms
  • n-way clustering
  • time course analysis
  • domain-driven data integration

Molecular biology

  • Transcriptional regulation
  • Epigenetic regulation
  • DNA damage and repair
Examples of data we analyse:
  • Gene expression
  • TF-DNA binding
  • Epigenomics
  • Gene disruption and editing readouts (CRISPR + sequencing)
    • Gene essentiality
    • Mutation patterns and signatures

Biomedicine (cancer)

Focus on disruption of relationships and pathways rather than single functional elements (i.e. genes).

  • Major regulation of disrupted pathways.
  • Mechanisms involved in drug resistance.
  • Gene essentiality and synthetic lethality relationships.
  • DNA damage and repair.

Research Partners