Dr. Jared Simpson

Investigator II

The Simpson lab develops algorithms and software for the analysis of high-throughput sequencing data. The lab, led by Dr. Jared Simpson, works primarily on de novo genome assembly, the detection of somatic mutations in cancer and, most recently, the development of algorithms for nanopore-based sequencers.

Current affiliations

  • Investigator II, OICR
  • Assistant Professor, Department of Computer Science, University of Toronto

Research Interests

  • Bioinformatics
  • Sequence analysis
  • Genomics
  • DNA sequencing technology
  • Algorithms

Select publications

See Dr. Simpson’s recent publications on PubMed or on Google Scholar.

Software

  • ABySS: ABySS is a de novo, parallel, paired-end sequence assembler that is designed for short reads
  • SGA: SGA is a de novo genome assembler based on the concept of string graphs
  • Nanopolish: A nanopore consensus algorithm using a signal-level hidden Markov model

Previous experience

  • Doctor of Philosophy, University of Cambridge/Wellcome Trust Sanger Institute
  • Computational Biologist, Genome Sciences Centre, BC Cancer Agency
  • Software Engineer, Electronic Arts
  • Bachelor of Science, Computer Science, University of British Columbia

Related links

The Simpson Lab

Opportunities to collaborate

If you’re interested in collaborating with Dr. Simpson, please contact him directly.

Visit OICR’s Collaborative Research Resources directory for more opportunities to collaborate with OICR researchers.

Contact

Dr. Jared Simpson
Jared.Simpson@oicr.on.ca
Twitter: @jaredtsimpson