Team

I am lucky to work with the following graduate students and Postdoctoral fellows. All of them are integrated into the larger Centre for Computational Medicine team, the members of which can be found here.

Orion Buske

Postdoctoral Research Fellow

Sergey Naumenko

Postdoctoral Research Fellow

Yue Jiang

Postdoctoral Research Fellow

Nicole Sultanum

Graduate Student

Aryan Arbabi

Graduate Student

Willie Chang

Graduate Student

Jixuan Wang

Graduate Student

I am proud of the following lab alumni:

PhD Students

  • Paul Medvedev, PhD 2010; now Assistant Prof at PennState
  • Nilgun Donmez, MSc 2008, PhD 2012; then PostDoc at Vancouver Prostate Centre
  • Vlad Yanovsky, PhD 2014, then in industry
  • Marc Fiume, MSc 2011, PhD 2015; now CEO at DNAStack
  • Orion Buske, PhD 2016; now Postdoc at Hospital for Sick Children

MSc Students

  • Elango Cheran, MSc 2008; then in Industry
  • Seunghak Lee, MSc 2009; then PhD at Carnegie Mellon University
  • Adrian Dalca, MSc 2010; then PhD at MIT
  • Aziz Mezlini, MSc 2011; then PhD student at Toronto
  • Justin Foong, MSc 2013; then Bioinformatician at Hospital for Sick Children;
  • Aryan Arbabi, MSc 2015; now PhD student at Toronto
  • Yuliya Rubanova, MSc 2016; then PhD student at Toronto

Selected Publications

All Publications

Genome Research, 2016

Bioinformatics, 32: 1662-1669, 2016

Human Mutation, 36: 931-940, 2015

Projects

CouGaR

CNVer is a method for CNV detection that supplements the depth-of-coverage with paired-end mapping information.

PhenoTips

PhenoTips is a software tool for collecting and analyzing phenotypic information for patients with genetic disorders.

PhenomeCentral

PhenomeCentral is a repository for clinicians and scientists working in the rare disorder community.

CNVer

CNVer is a method for CNV detection that supplements the depth-of-coverage with paired-end mapping information.

Medsavant

MedSavant is a software platform for accelerating the identification of disease-causing genetic variants.

SHRiMP

SHRiMP is a NGS read mapper that achieves high sensitivity at a reasonable speed.

Savant

Savant is a next-generation genome browser designed for the latest generation of genome data.

Silva

SilVA is a tool for the automated harmfulness prediction of synonymous mutations within the human genome.

Teaching

I have taught the following courses at the University of Toronto:

Academic Biography

Michael Brudno is the Scientific Director of the Centre for Computational Medicine at the Hospital for Sick Children and an Associate Professor in the Department of Computer Science at the University of Toronto. Michael’s main research interest is the development of computational methods for the analysis of clinical and genomic datasets, especially capture of precise clinical data from clinicians using effective user interfaces, and its utilization in the automated analysis of genomes. He is also leading HPC4Health, a joint project of SickKids and UHN to build a private computing cloud for Toronto hospitals.

After receiving a BA in Computer Science and History from UC Berkeley, Michael received his PhD from the Computer Science Department of Stanford University, working on algorithms for whole genome alignments. He completed a postdoctoral fellowship at UC Berkeley and was a Visiting Scientist at MIT. He is the recipient of the Ontario Early Researcher Award and the Sloan Fellowship, as well as the Outstanding Young Canadian Computer Scientist Award.

Contact

  • brudno@cs.toronto.edu
  • +1 416-978-2589
  • University of Toronto: Pratt Building Room 286C, 6 King’s College Rd, Toronto, ON M5S 3G4, Canada.
  • Hospital for Sick Children: Peter Gilgan Centre for Research and Learning Room 12.9709, 686 Bay St, Toronto, ON M5G 0A4, Canada