Faculty profile

Gary Bader

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ProfessorTerrence Donnelly Centre for Cellular and Biomolecular ResearchUniversity of Toronto

Gary Bader

Professor

Terrence Donnelly Centre for Cellular and Biomolecular Research

Temerty Faculty of Medicine

University of Toronto

Toronto, Ontario, Canada

Scholar ORCID

Supervision signals

Professors usually supervise graduate students in their department's programs.
6 publications in the last five years, latest in 2025.
Principal investigator on 12 research grants (7 CIHR, 5 NSERC), most recently in 2026.
Supervised 5 trainees who won CIHR awards, most recently in 2024.

These signals come from public records, including CIHR, NSERC and SSHRC funding decisions. Ask the professor or the graduate program whether they are taking new students.

Academic metrics

Publications

458

Citations

h-index

Collaborators

Grants

Publications by year

Counts cover the works listed on the university profile; citation counts come from Dimensions.

Education

Ph.D.
B.Sc.

Profiles and links

University Profile Personal Website Google Scholar iDORCID

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Signals and details

Research

Read how they describe their research on their University of Toronto profile.

Bioinformatics Computational Biology Genetics Genomics Human Genetics Statistical Genetics Statistics Colitis

Latest papers

Cytoscape Web: bringing network biology to the browser.
Nucleic acids research · 2025
The commitment of the human cell atlas to humanity.
Nature communications · 2024
Specifications of standards in systems and synthetic biology: status, developments, and tools in 2024.
Journal of integrative bioinformatics · 2024

All 21 publications

Latest funding

Mapping human genetic disease modifiers and biology from biobanks
CIHR · 2026 · Nominated PI
$1,304,326
Functional Genomic Characterization of Glioblastoma Stem Cell state determinants
CIHR · 2026 · Co-investigator
$1,021,276
Characterizing meningioma heterogeneity and microenvironment for new therapeutic opportunities
CIHR · 2025 · Co-investigator
$787,952

All 41 grants and awards

21 publications.

Cytoscape Web: bringing network biology to the browser.

Ono K, Fong D, Gao C, Churas C, Pillich R, Lenkiewicz J, Pratt D, Pico AR, Hanspers K, Xin Y, Morris J, Kucera M, Franz M, Lopes C, Bader G, Ideker T, Chen J

Nucleic acids research2025

DOI: 10.1093/nar/gkaf365 PMID: 40308211

The commitment of the human cell atlas to humanity.

Amit I, Ardlie K, Arzuaga F, Awandare G, Bader G, Bernier A, Carninci P, Donnelly S, Eils R, Forrest ARR, Greely HT, Guigo R, Hacohen N, Haniffa M, Kirby ES, Knoppers BM, Kriegstein A, Lein ES, Linnarsson S, Majumder PP, Merad M, Meyer K, Mhlanga MM, Nolan G, Ntusi NAB, Pe'er D, Prabhakar S, Raven-Adams M, Regev A, Rozenblatt-Rosen O, Saha S, Saltzman A, Shalek AK, Shin JW, Stunnenberg H, Teichmann SA, Tickle T, Villani AC, Wells C, Wold B, Yang H, Zhuang X

Nature communications2024

DOI: 10.1038/s41467-024-54306-x PMID: 39567491

Specifications of standards in systems and synthetic biology: status, developments, and tools in 2024.

Golebiewski M, Bader G, Gleeson P, Gorochowski TE, Keating SM, König M, Myers CJ, Nickerson DP, Sommer B, Waltemath D, Schreiber F

Journal of integrative bioinformatics2024

DOI: 10.1515/jib-2024-0015 PMID: 39026464

Robust segregation of donor and recipient cells from single-cell RNA-sequencing of transplant samples.

Wilson GW, Duong A, Moshkelgosha S, Bader G, Keshavjee S, Martinu T, Juvet SC, Yeung JC

Frontiers in transplantation2023

DOI: 10.3389/frtra.2023.1161146 PMID: 38993922

The reactome pathway knowledgebase 2022.

Gillespie M, Jassal B, Stephan R, Milacic M, Rothfels K, Senff-Ribeiro A, Griss J, Sevilla C, Matthews L, Gong C, Deng C, Varusai T, Ragueneau E, Haider Y, May B, Shamovsky V, Weiser J, Brunson T, Sanati N, Beckman L, Shao X, Fabregat A, Sidiropoulos K, Murillo J, Viteri G, Cook J, Shorser S, Bader G, Demir E, Sander C, Haw R, Wu G, Stein L, Hermjakob H, D'Eustachio P

Nucleic acids research2022

DOI: 10.1093/nar/gkab1028 PMID: 34788843

Single-cell atlas of human liver development reveals pathways directing hepatic cell fates.

Wesley BT, Ross ADB, Muraro D, Miao Z, Saxton S, Tomaz RA, Morell CM, Ridley K, Zacharis ED, Petrus-Reurer S, Kraiczy J, Mahbubani KT, Brown S, Garcia-Bernardo J, Alsinet C, Gaffney D, Horsfall D, Tysoe OC, Botting RA, Stephenson E, Popescu DM, MacParland S, Bader G, McGilvray ID, Ortmann D, Sampaziotis F, Saeb-Parsy K, Haniffa M, Stevens KR, Zilbauer M, Teichmann SA, Vallier L

Nature cell biology2022

DOI: 10.1038/s41556-022-00989-7 PMID: 36109670

CD200 expression marks leukemia stem cells in human AML.

Ho JM, Dobson SM, Voisin V, McLeod J, Kennedy JA, Mitchell A, Jin L, Eppert K, Bader G, Minden MD, Dick JE, Wang JCY

Blood advances2020

DOI: 10.1182/bloodadvances.2020001802 PMID: 33147339

Medulloblastoma Arises from the Persistence of a Rare and Transient Sox2+ Granule Neuron Precursor.

Selvadurai HJ, Luis E, Desai K, Lan X, Vladoiu MC, Whitley O, Galvin C, Vanner RJ, Lee L, Whetstone H, Kushida M, Nowakowski T, Diamandis P, Hawkins C, Bader G, Kriegstein A, Taylor MD, Dirks PB

Cell reports2020

DOI: 10.1016/j.celrep.2020.03.075 PMID: 32294450

Relapse-Fated Latent Diagnosis Subclones in Acute B Lineage Leukemia Are Drug Tolerant and Possess Distinct Metabolic Programs.

Dobson SM, García-Prat L, Vanner RJ, Wintersinger J, Waanders E, Gu Z, McLeod J, Gan OI, Grandal I, Payne-Turner D, Edmonson MN, Ma X, Fan Y, Voisin V, Chan-Seng-Yue M, Xie SZ, Hosseini M, Abelson S, Gupta P, Rusch M, Shao Y, Olsen SR, Neale G, Chan SM, Bader G, Easton J, Guidos CJ, Danska JS, Zhang J, Minden MD, Morris Q, Mullighan CG, Dick JE

Cancer discovery2020

DOI: 10.1158/2159-8290.cd-19-1059 PMID: 32086311

Functional genomic landscape of cancer-intrinsic evasion of killing by T cells

Lawson KA, Sousa CM, Zhang X, Kim E, Akthar R, Caumanns JJ, Yao Y, Mikolajewicz N, Ross C, Brown KR

Nature2020458 citations

DOI: 10.1038/s41586-020-2746-2

Mapping human genetic disease modifiers and biology from biobanks

Nominated PICIHR2026Project Grant

Principal investigators: Bader, Gary D

Keywords: Bioinformatics; Computational Biology; Genetics; Genomics; Human Genetics; Statistical Genetics; Statistics

$1,304,326

Functional Genomic Characterization of Glioblastoma Stem Cell state determinants

Co-investigatorCIHR2026Project Grant

Principal investigators: Angers, Stephane

Keywords: Cell Biology; Cell States; Crispr; Functional Genomics; Glioblastoma; Tumor Heterogeneity

$1,021,276

Characterizing meningioma heterogeneity and microenvironment for new therapeutic opportunities

Co-investigatorCIHR2025Project Grant

Principal investigators: Nassiri, Farshad

Keywords: Computational Biology; Genomics; Meningioma; Neuro-Oncology; Single Cell Rna Sequencing; Spatial Transcriptomics; Tumor Microenvironment

$787,952

The Canadian Bioinformatics, Computational Biology and Health Data Sciences Training and Community Platform (BCBHDS Platform)

Co-investigatorCIHR2024Training Grant: HRTP - Bioinformatics, Computational Biology, Health Data Scien.

Principal investigators: Brazas, Michelle D; Bourque, Guillaume; Hsiao, William; Hughes, Nia; Hussin, Julie; Kong, Jude D; Pai, Shraddha; Sukhai, Mahadeo; Wasserman, Wyeth W; Wishart, David S

Keywords: Bioinformatics, Computational Biology & Health Data Science; Championing Diverse Talent And Careers; Competency Based Learning Pathways; Graduates, Post-Graduates And Early Career Researchers; Idea- And Career-Focused Matched Mentorship Guidance; Interdisciplinary, Intersectoral Capacity Building; Local Training Opportunities And Awards; National Community Building Activities; On-Demand, Virtual And In-Person Training; Professional Development Training

$5,550,000

Unravelling the Cellular and Immunologic Landscape of the Gut in Children with Primary Sclerosing Cholangitis at Single-Cell Resolution

Principal investigatorCIHR2024Project Grant

Principal investigators: Ricciuto, Amanda; Bader, Gary D; MacParland, Sonya

Keywords: Colitis; Inflammatory Bowel Disease (Ibd); Machine Learning; Paediatric; Primary Sclerosing Cholangitis (Psc); Screening; Single-Cell Transcriptomics

$822,376

Uncovering the role of physiologically relevant biliary signaling in engineering 3D bile duct tubes with human pluripotent stem cell-derived cholangiocytes

Co-investigatorCIHR2024Project Grant

Principal investigators: Ogawa, Shinichiro; Zhang, Boyang

Keywords: Biliary Disease; Cholangiopathies; Cystic Fibrosis; Cystic Fibrosis Related Liver Disease; Liver Disease

$986,850

Mapping the Determinants of Liver Transplant Outcomes

SupervisorCIHR2024CIHR Fellowship

Principal investigators: Edgar, Rachel D

Keywords: Bioinformatics; Liver Immunology; Liver Transplant; Single Cell Transcriptomics

$210,000

Manipulating the cellular microenvironment to bioengineer bile ducts

Co-investigatorCIHR2023Project Grant

Principal investigators: Mcgilvray, Ian D

Keywords: Bile Duct; Bioengineering; Fibrosis; Immunology; Liver; Macrophage Phenotype; Microsurgery; Single Cell Transcriptomics; Single Nucleus Transcriptomics; Transplantation

$1,067,175

Mathematical modelling of tissue development

Principal investigatorNSERC2022Discovery Grants Program - Individual

Principal investigators: Bader, Gary

$144,000

An automated manufacturing and high speed imaging platform for identifying functional perturbations in engineered tissues

Co-investigatorNSERC2021Research Tools and Instruments

Principal investigators: McGuigan, Alison

$150,000

From CIHR, NSERC and SSHRC funding decisions: CIHR since 2008, NSERC since 1991 and SSHRC since 1998, including their latest published competition results.

Profile data last refreshed on September 25, 2026 from the university directory, publication records and CIHR, NSERC and SSHRC funding.

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Gary Bader

Research

Latest papers

Latest funding

Cytoscape Web: bringing network biology to the browser.

The commitment of the human cell atlas to humanity.

Specifications of standards in systems and synthetic biology: status, developments, and tools in 2024.

Robust segregation of donor and recipient cells from single-cell RNA-sequencing of transplant samples.

The reactome pathway knowledgebase 2022.

Single-cell atlas of human liver development reveals pathways directing hepatic cell fates.

CD200 expression marks leukemia stem cells in human AML.

Medulloblastoma Arises from the Persistence of a Rare and Transient Sox2+ Granule Neuron Precursor.

Relapse-Fated Latent Diagnosis Subclones in Acute B Lineage Leukemia Are Drug Tolerant and Possess Distinct Metabolic Programs.

Functional genomic landscape of cancer-intrinsic evasion of killing by T cells

Mathematical modelling of tissue development

An automated manufacturing and high speed imaging platform for identifying functional perturbations in engineered tissues

Frequent collaborators

Andrew Emili

Mark Bernstein

Quaid Morris

Mathieu Lupien

Jason Moffat

Daniel De Carvalho

Kenneth Aldape

Tereza Martinu

Xi Huang

Antonio Finelli

Sonya MacParland

Vijay Ramaswamy

Phedias Diamandis

Dalia Barsyte-Lovejoy

Ellen Langille

Bharati Bapat

Sunit Das

Pingzhao Hu

Stefan Hofer

Cynthia Hawkins

Mohan Babu

Laurie Ailles

Rama Khokha

Cheryl Arrowsmith

Shaf Keshavjee

David Malkin

Kolja Eppert

Lea Harrington

Hong Han

Lincoln Stein

Thomas Kislinger

Stephane Angers