Lab Members

Principal Investigator
Dr. John Parkinson
Senior Scientist
Molecular Structure and Function Hospital for Sick Children
Associate Professor
Departments of Biochemistry & Molecular Genetics University of Toronto
Post Doctoral Fellow (Nov 2007)
Dr. Xuejian Xiong
Ph.D. Nanyang Technological University (Singapore)
Comparative Genomics and Interactomics, System Biology, Machine Learning Methodology
Post Doctoral Fellow (2011)
Dr. Noeleen Loughran
Ph.D. Dublin City University (Ireland)
Comparative Genomics and Evolutionary Biology
Post Doctoral Fellow (2011)
Dr. Verena Brand
Ph.D. Eberhard Karls University (Tuebingen , Germany)
Metabolic network and mechanistic insights in pathogenesis of Toxoplasma gondii
Post Doctoral Fellow (2011)
Dr. Yue Jiang(Cindy)
Ph.D Wuha Institute of Virology, CAS (China)
Ecoli membrane protein network
Bioinformatics Analyst (May 2007)
Bill Song
M.Sc in Computer Science - McGill
Computational simulation of elastin self-assembly and mechanics
PhD Student (Sep 2006)
Graham Cromar
University of Toronto (Molecular Genetics)
The evolution and organization of the extracellular matrix more...
PhD Student (Sep 2007)
Stacy Hung homepage
University of Toronto (Molecular Genetics)
Metabolic network analysis in Apicomplexan parasites
PhD Student (Sep 2009)
Kris Hon
University of Toronto (Biochemistry)
Investigating Nanocompartments For Use in Metabolic Channeling
Graduate Student (Jan 2010)
Carl Song
University of Toronto (Molecular Genetics)
Metabolic reconstruction and analysis in Toxoplasma gondii
PhD Student (Jan 2010)
Mahboubeh Ghoryshi
University of Toronto (Biochemistry)
Elastin polymorphisms associated with increased risk of cardiovascular disease
PhD Student (Sep 2011)
Cedoljub Bundalovic-Torma
University of Toronto (Biochemistry)
Evolution of bacterial genetic networks

Alumni (in order of appearance - most recent first)

Post Doctoral Fellow Dr. James Wasmuth (March 2006) homepage Ph.D. (with Mark Blaxter) University of Edinburgh (UK) Comparative analysis of metabolic networks - identification of critical components in parasites
Graduate Student David He (Sep 2004) University of Toronto (Molecular Genetics) Elastin sequence-structure-function relationships
Graduate Student Tuan On (Sep 2007-Nov 2010) University of Toronto (Molecular Genetics) Evolutionary dynamics of chromatin remodelling complexes
Graduate Student Farhan Raja (Sep 2008-Sep 2010) University of Toronto (Biochemistry) Flux balance analysis applied to the malarial parasite - Plasmodium falciparum  
Graduate Student Chris Sanford (Mar 2006-Mar 2009) University of Toronto (Molecular Genetics) Computer simulations of cell processes: Applications to metabolic channeling
Post Doctoral Fellow Dr. Jose Manuel Peregrin-Alvarez (Nov 2003-Mar 2009) Ph.D. (with Christos Ouzounis) EBI (Cambridge - UK) / University of Sevilla (Spain) The evolution of biological networks and the development of the Bacteriome resource
Ben Elsworth (May-Sep 2007) University of York (UK) M.Sc Bioinformatics Metabolic network analysis of Apicomplexans
Naema Nayyar (May-Sep 2007) University of Waterloo Computer Science / Bioinformatics student Cell++ - software for simulating biological processes

Sukwon Oh (Jan-Apr 2007) University of Waterloo Software Engineering Cell++ - software for simulating biological processes Chong Su (Jan-Apr 2007) University of Waterloo Computer Science / Bioinformatics student The Bacteriome project Sharon Dubois (Jan-Apr 2006) University of Waterloo Computer Science / Bioinformatics student Comparative genomics of non-model organisms Kevin Ha (Jan-Apr 2006) University of Waterloo Computer Science / Bioinformatics student Elastin sequence analysis / ElastoDB database construction Jennifer Daub (May-Sep 2005) York University (UK) MSc Student Bioinformatics Comparative genomics of Apicomplexans Gaya Sivakumar (Jan-Apr 2005) University of Waterloo Computer Science / Bioinformatics student Comparative genomics of non-model organisms Trevis Alleyne (Sep-Dec 2004) University of Waterloo Computer Science / Bioinformatics student Elastin sequence analysis / ElastoDB database construction Andrew Yam (Sep-Dec 2003; May-Sep 2004) University of Waterloo Computer Science / Bioinformatics student Comparative genomics of non-model organisms Matthew L.K. Yip (Sep-Dec 2003; May-Sep 2004) University of Waterloo Computer Science / Bioinformatics student Computational simulations of cell processes Esther Chan (May-Sep 2004) University of Toronto / Human Biology and Computer Science Characterisation of the Elastin gene family