Studies human genetic variation using GWAS, CRISPR editing, pooled single-cell CRISPR screens and human cell models. Identifies noncoding regulatory variants, target genes and disease mechanisms.
11 papers since 2024
›
Comprehensive dissection of cis-regulatory elements in a 2.8 Mb topologically associated domain in six human cancers
Nature Communications, 2025
Deciphering the impact of genomic variation on function
Nature, 2024
Nonlinear transcriptional responses to gradual modulation of transcription factor dosage
Develops computational methods for genomics, single-cell genomics and Visium HD spatial transcriptomics. Uses network and pathway analysis to study development, cancer and wound healing.
73 papers since 2024
›
Single-cell, single-nucleus, and spatial transcriptomics characterization of the immunological landscape in the healthy and PSC human liver
Journal of Hepatology, 2024
Single-cell atlas of the human brain vasculature across development, adulthood and disease
Nature, 2024
The multimodality cell segmentation challenge: toward universal solutions
Visium HD, spatial transcriptomics, single-nucleus transcriptomics, electron microscopy
Techniques
network and pathway analysis, ecosystem modelling, deep learning, genetic interaction network analysis, statistical data analysis, organoid development
Builds computational tools using cancer genome and exome sequencing, protein structure, clinical data, and machine learning. Studies mutation effects, drug targets, and cancer progression.
11 papers since 2024
›
Building Nucleosome Positioning Maps: Discovering Hidden Gems
Generates and analyzes genomic, epigenomic, RNA-seq, long-read and single-cell data from population cohorts. Studies cancer, aging and pre-diagnostic biomarkers with CanPath and Ontario Health Study.
100 papers since 2024
›
Early Changes in Tumor-Naive Cell-Free Methylomes and Fragmentomes Predict Outcomes in Pembrolizumab-Treated Solid Tumors
Cancer Discovery, 2024
Psychosocial factors, health behaviors and risk of cancer incidence: Testing interaction and effect modification in an individual participant data meta‐analysis
International Journal of Cancer, 2024
The mediating role of health behaviors in the association between depression, anxiety and cancer incidence: an individual participant data meta-analysis
Analyzes CGEn’s Host Genome Sequencing Databank containing sequence and metadata from 10,000 Canadians with SARS-CoV-2 infection. Studies COVID-19 genetics through genetic epidemiology and statistical genetics.
7 papers since 2024
›
Sex-specific DNA methylation marks associated with sex-biased risk of recurrence in unprovoked venous thromboembolism
Journal of Thrombosis and Haemostasis, 2025
Optimizing marker density for maximizing the accuracy of genomic prediction and heritability estimates in three major North American and European spruce species
bioRxiv (Cold Spring Harbor Laboratory), 2025
Canadian COVID-19 host genetics cohort replicates known severity associations
Runs Illumina NovaSeq 6000, MiSeq, PacBio Sequel IIe and Oxford Nanopore PromethION platforms. Supports human genomics and disease research worldwide.
Funded by Genome Canada, Canada Foundation for Innovation +2 more
›
Genome Canada, Ontario Genomics Institute (OGI-033) · active
“Major funding for The Centre for Applied Genomics is provided by the Government of Canada through Genome Canada and the Ontario Genomics Institute (OGI-033).”
Canada Foundation for Innovation, CFI · active
“significant grant support from Genome Canada, the Canada Foundation for Innovation (CFI), the Ontario Ministry of Economic Development and Innovation, SickKids Foundation”
Ontario Ministry of Economic Development and Innovation · active
“significant grant support from Genome Canada, the Canada Foundation for Innovation (CFI), the Ontario Ministry of Economic Development and Innovation, SickKids Foundation”
Studies adults with 22q11.2 deletion syndrome using clinical data and whole-genome sequencing. Research targets congenital heart defects, psychiatric features and genetic risk.
29 papers since 2024
›
Expanding the phenotypic spectrum of NOTCH1 variants: clinical manifestations in families with congenital heart disease
European Journal of Human Genetics, 2024
Neurocognitive profiles of 22q11.2 and 16p11.2 deletions and duplications
Molecular Psychiatry, 2024
Real-World Treatment of Schizophrenia in Adults With a 22q11.2 Microdeletion: Traitement dans le monde réel de la schizophrénie chez des adultes atteints du syndrome de microdélétion 22q11.2
Dalglish Family Hearts & Minds Clinic for 22q11.2 Deletion Syndrome22q.ca
Dry lab~14 people
Studies adults with 22q11.2 deletion syndrome using clinical and medical information. Research addresses congenital heart defects, psychiatric conditions and other features.
29 papers since 2024
›
Expanding the phenotypic spectrum of NOTCH1 variants: clinical manifestations in families with congenital heart disease
European Journal of Human Genetics, 2024
Neurocognitive profiles of 22q11.2 and 16p11.2 deletions and duplications
Molecular Psychiatry, 2024
Real-World Treatment of Schizophrenia in Adults With a 22q11.2 Microdeletion: Traitement dans le monde réel de la schizophrénie chez des adultes atteints du syndrome de microdélétion 22q11.2
Funded by W. Garfield Weston Foundation, Dalglish Family Foundation +2 more
›
Canadian Institutes of Health Research, Planning and Dissemination Grant – Institute Community Support · May 2024
“In May 2024, Dr. Bassett received a $15,000 “Planning and Dissemination Grant – Institute Community Support” from the Canadian Institutes of Health Research (CIHR)”
Ontario Ministry of Health & Long Term Care · 2018-present
“The Ontario Ministry of Health & Long Term Care (MOHLTC) supports the basic operations of our Clinic”
W. Garfield Weston Foundation · 2012
“This Clinic was started at the Toronto General Hospital through a private donation by the W. Garfield Weston Foundation”
Evaluates genome-wide sequencing, exome sequencing and genetic testing with C-GUIDE and P-GUIDE. Studies maternal-child genomic care with Genome-wide Sequencing Ontario and CHILD-BRIGHT.
55 papers since 2024
›
Data-driven consideration of genetic disorders for global genomic newborn screening programs
Genetics in Medicine, 2025
Mainstreaming of clinical genetic testing: A conceptual framework
Genetics in Medicine, 2025
Family‐centred care interventions for children with chronic conditions: A scoping review
Applied health services and policy research, Outcome-measure development and validation, Measurement science and co-design with patient partners, Semi-structured interviews, Medical record review and administrative-data linkage, Mixed-methods hybrid implementation-effectiveness design
Develops AI methods for single-cell RNA sequencing, spatial transcriptomics, MRI and clinical data. Uses them for target discovery, therapeutic design, precision medicine and clinical translation.
56 papers since 2024
›
GraphBAN: An inductive graph-based approach for enhanced prediction of compound-protein interactions
Nature Communications, 2025
iNGNN-DTI: prediction of drug–target interaction with interpretable nested graph neural network and pretrained molecule models
Bioinformatics, 2024
Computational frameworks integrating deep learning and statistical models in mining multimodal omics data
Funded by NSERC, Canada-France Joint Funding on Artificial Intelligence +9 more
›
Natural Science and Engineering Research Council of Canada, Individual Discovery Grants · 2026 Apr – 2031 Mar
“2026 Apr – 2031 Mar: Multimodal Generative AI for Molecular Foundation Models, Automated Design, and Closed-Loop Discovery.”
CIHR, 2025 Spring Project Grants · 2025 Oct – 2030 Sep
Canada's federal health-research funder, the equivalent of the NIH.
“2025 Oct – 2030 Sep: AI-driven platform for large-scale screening, analysis, and experimental validation: targeting Pin1 for precision drug discovery in triple-negative breast cancer.”
Canada-France Joint Funding on Artificial Intelligence · 2025 Nov – 2029 Oct
“2025 Nov – 2029 Oct: Development and discovery of Pin1 inhibitors using generative AI.”
Develops CRISPR-based gene perturbation and data-analytics methods in human and mouse cells. Maps genetic interactions to identify therapeutic targets for cancer.
122 papers since 2024
›
The pathways for nanoparticle transport across tumour endothelium
Nature Nanotechnology, 2025
Discovering nanoparticle corona ligands for liver macrophage capture
Nature Nanotechnology, 2025
Targeting axonal guidance dependencies in glioblastoma with ROBO1 CAR T cells
Uses PacBio long-read sequencing and RNA-seq to study genetic disease. Builds therapeutic, diagnostic and predictive models for cystic fibrosis and epilepsy.
28 papers since 2024
›
Large-scale genome-wide association analyses identify novel genetic loci and mechanisms in hypertrophic cardiomyopathy
Nature Genetics, 2025
Directional integration and pathway enrichment analysis for multi-omics data
Nature Communications, 2024
Longitudinal changes in BMD in adults with cystic fibrosis
Studies genetic, epigenetic and gene-expression data to guide psychiatric medication response. Uses IMPACT pharmacogenetic testing and large patient cohorts for personalized mental-health treatment.
72 papers since 2024
›
Genomics yields biological and phenotypic insights into bipolar disorder
Nature, 2025
Mapping the genetic landscape across 14 psychiatric disorders
Nature, 2025
Genome-wide association analyses identify 95 risk loci and provide insights into the neurobiology of post-traumatic stress disorder
Applies statistics and machine learning to UK Biobank, All of Us, FinnGen and single-cell omics data. Uses these data to study brain diseases and identify drug targets.
13 papers since 2024
›
Transformers and genome language models
Nature Machine Intelligence, 2025
Genetic architecture of the structural connectome
Nature Communications, 2024
CAGI, the Critical Assessment of Genome Interpretation, establishes progress and prospects for computational genetic variant interpretation methods
Analyzes short-read and long-read WGS for tandem repeats, rare variants and genetic modifiers. Applies these methods to neurodevelopmental and neurological disorders.
22 papers since 2024
›
Comprehensive whole-genome sequence analyses provide insights into the genomic architecture of cerebral palsy
Nature Genetics, 2024
C9orf72 repeat expansion creates the unstable folate-sensitive fragile site FRA9A
NAR Molecular Medicine, 2024
Genome-wide enhancer-associated tandem repeats are expanded in cardiomyopathy