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.
- Investigator I, OICR
- 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
- Mid-Career Investigator, OICR
- Assistant Professor, Department of Computer Science, University of Toronto
- Jain M, Koren S, Miga KH, …, Simpson JT, Loman NJ, Loose M. Nanopore sequencing and assembly of a human genome with ultra-long reads. Nat Biotechnol. 2018; 36(4):338-345.
- Simpson JT, Workman RE, Zuzarte PC, …, Timp W. Detecting DNA cytosine methylation using nanopore sequencing. Nat Methods. 2017; 14(4):407-410.
- Quick J, Loman NJ, Duraffour S, Simpson JT, …, Carroll MW. Real-time, portable genome sequencing for Ebola surveillance. Nature. 2016; 530(7589):228-232.
- Loman NJ, Quick J, Simpson JT. A complete bacterial genome assembled de novo using only nanopore sequencing data. Nat Methods. 2015; 12(8):733-5.
- Simpson JT. Exploring genome characteristics and sequence quality without a reference. Bioinformatics. 2014; 30(9):1228-35.
- Simpson JT, Durbin R. Efficient de novo assembly of large genomes using compressed data structures. Genome Res. 2012; 22(3):549-56.
- Simpson JT, Wong K, Jackman SD, Schein JE, Jones SJ, Birol I. ABySS: a parallel assembler for short read sequence data. Genome Res. 2009; 19(6):1117-23.
If you’re interested in collaborating with Dr. Simpson, please contact him directly.
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