Research Interests

We design algorithms to understand gene regulation and disruptions in disease, and 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 (RNA-seq)
  • TF binding (ChIP-seq)
  • Epi modifications (ChIP-seq)
  • Chromatin compaction (Hi-C)
  • Genome editing (CRISPR/Cas9)

Biomedicine (cancer)

We focus on changes to entire pathways rather than single elements. Pathways are not static (e.g. KEGG), they are captured by our algorithms.

  • Discovery of novel therapeutic targets as major regulatory elements of disrupted pathways
  • Identification of regulatory mechanisms involved in drug resistance

Research Partners