Faculty profile

Mathieu Blanchette

ResearcherMcGill University

This profile is built from public research funding records (CIHR, NSERC and SSHRC) and PubMed. We have not imported them from a McGill University directory, so their courses and email address may be missing. Find their university profile.

Mathieu Blanchette

Researcher

Health Sciences

McGill University

Montreal, Quebec, Canada

Supervision signals

Has led research grants, which requires an independent research appointment. Ask their department whether they supervise graduate students.
20 publications in the last five years, latest in 2026.
Senior (last) author on 7 recent papers, a sign of leading a research group.
Principal investigator on 8 research grants (6 NSERC, 2 CIHR), most recently in 2019.
Supervisor on 1 trainee award (1 CIHR), most recently in 2016.

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

Collaborators

Grants

Publications by year

Counts cover the publications linked to this profile. Citations and the h-index appear when the source records them.

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Signals and details

Research

Comparative Genomics Functional Genomics Integrative Genomics Non-Coding Dna Transposable Element Detection And Annotation Alignment Annotation Genome

Latest papers

Protocol for telomere-to-telomere assembly of Borrelia genomes using a hybrid method.
STAR protocols · 2026
Telomere-to-telomere assembly detects genomic diversity in Canadian strains of Borrelia burgdorferi.
Cell reports · 2026
H3K27me3 spreading organizes canonical PRC1 chromatin architecture to regulate developmental programs.
Nature genetics · 2026

All 97 publications

Latest funding

Machine learning approaches to mine evolving 3D genomes
NSERC · 2019 · Principal investigator
$348,000
Functional non-coding RNA genes conferring beneficial traits to Camelina
NSERC · 2017 · Co-investigator
$573,579
Computational methods and databases to identify small RNA-binding molecules regulating gene expression.
CIHR · 2016 · Co-investigator
$133,132

All 17 grants and awards

97 publications.

Protocol for telomere-to-telomere assembly of Borrelia genomes using a hybrid method.

Amin AB, Ibarra-Meneses AV, Blanchette M, Fernandez-Prada C, Langlais D

STAR protocols2026

DOI: 10.1016/j.xpro.2026.104841 PMID: 42752086

Telomere-to-telomere assembly detects genomic diversity in Canadian strains of Borrelia burgdorferi.

Amin AB, Ibarra-Meneses AV, Gagnon S, Merhi G, Olivier M, Ndao M, Blanchette M, Fernandez-Prada C, Langlais D

Cell reports2026

DOI: 10.1016/j.celrep.2026.116935 PMID: 41649924

H3K27me3 spreading organizes canonical PRC1 chromatin architecture to regulate developmental programs.

Krug B, Hu B, Chen H, Negrón-Lomas C, Chen X, El Mouatani A, Gretarsson KH, Ptack A, Deshmukh S, Kabir N, Jawhar W, Andrade AF, Jabbour E, Harutyunyan AS, Wang X, Taylor R, Lee JJY, Hulswit M, Faury D, Russo C, Xu X, Yang J, Baguette A, Dahl NA, Weil AG, Ellezam B, Dali R, Blanchette M, Wilson K, Garcia BA, Soni RK, Gallo M, Taylor MD, Kleinman CL, Majewski J, Jabado N, Lu C

Nature genetics2026

DOI: 10.1038/s41588-026-02586-y PMID: 42151415

GraphyloVar: predicting the impact of non-coding variants using a multi-species sequence model.

Lim D, Blanchette M

Bioinformatics (Oxford, England)2026Senior author

DOI: 10.1093/bioinformatics/btag426 PMID: 42330352

RobusTAD: reference panel based annotation of nested topologically associating domains.

Zhang Y, Dali R, Blanchette M

Genome biology2025Senior author

DOI: 10.1186/s13059-025-03568-9 PMID: 40390127

A multivariate approach to identify association between peripheral blood DNA methylation and cerebrospinal fluid biomarkers of Alzheimer disease.

Xiao B, Zeng Y, Oros Klein K, Granato B, Blanchette M, Shao X, Greenwood CMT

Scientific reports2025

DOI: 10.1038/s41598-025-22004-3 PMID: 41184364

Improving microbial phylogeny with citizen science within a mass-market video game.

Sarrazin-Gendron R, Ghasemloo Gheidari P, Butyaev A, Keding T, Cai E, Zheng J, Mutalova R, Mounthanyvong J, Zhu Y, Nazarova E, Drogaris C, Erhart K, Borderlands Science Development Team, Borderlands Science players, Brouillette A, Richard G, Pitchford R, Caisse S, Blanchette M, McDonald D, Knight R, Szantner A, Waldispühl J

Nature biotechnology2025

DOI: 10.1038/s41587-024-02175-6 PMID: 38622344

Graphylo: A deep learning approach for predicting regulatory DNA and RNA sites from whole-genome multiple alignments.

Lim D, Baek C, Blanchette M

iScience2024Senior author

DOI: 10.1016/j.isci.2024.109002 PMID: 38362268

R3Design: deep tertiary structure-based RNA sequence design and beyond.

Tan C, Zhang Y, Gao Z, Cao H, Li S, Ma S, Blanchette M, Li SZ

Briefings in bioinformatics2024

DOI: 10.1093/bib/bbae682 PMID: 39737572

TULIPs decorate the three-dimensional genome of PFA ependymoma.

Johnston MJ, Lee JJY, Hu B, Nikolic A, Hasheminasabgorji E, Baguette A, Paik S, Chen H, Kumar S, Chen CCL, Jessa S, Balin P, Fong V, Zwaig M, Michealraj KA, Chen X, Zhang Y, Varadharajan S, Billon P, Juretic N, Daniels C, Rao AN, Giannini C, Thompson EM, Garami M, Hauser P, Pocza T, Ra YS, Cho BK, Kim SK, Wang KC, Lee JY, Grajkowska W, Perek-Polnik M, Agnihotri S, Mack S, Ellezam B, Weil A, Rich J, Bourque G, Chan JA, Yong VW, Lupien M, Ragoussis J, Kleinman C, Majewski J, Blanchette M, Jabado N, Taylor MD, Gallo M

Cell2024

DOI: 10.1016/j.cell.2024.06.023 PMID: 38986619

Machine learning approaches to mine evolving 3D genomes

Principal investigatorNSERC2019Discovery Grants Program - Individual

Principal investigators: Blanchette, Mathieu

$348,000

Functional non-coding RNA genes conferring beneficial traits to Camelina

Co-investigatorNSERC2017Strategic Projects - Group

Principal investigators: Bureau, Thomas

$573,579

Computational methods and databases to identify small RNA-binding molecules regulating gene expression.

Co-investigatorCIHR2016Operating Grant: Bioinformatics and Computational Biology

Principal investigators: Waldispuhl, Jerome

Keywords: Bioinformatics

$133,132

System-wide environmental perturbations transform understanding of relationships between high-dimensional data, exposures, and phenotypes

Co-investigatorCIHR2016Project Grant

Principal investigators: Greenwood, Celia M; Labbe, Aurelie

Keywords: Data Integration; Dimension Reduction; Gene-Environment Interaction; High Dimensional Modelling; Penalization; Prediction Modelling; Statistical Methods In Genomics

$236,995

3D Chromosomal structure analysis via extended Markov Chain Monte Carlo algorithms

SupervisorCIHR2016Undergraduate: Genetics - ICS

Principal investigators: Guo, Hong Chuan

Keywords: Ics Studentship

$5,000

Crowdsourcing Genomic Databases.

Co-investigatorCIHR2016Operating Grant: Bioinformatics and Computational Biology

Principal investigators: Waldispuhl, Jerome

Keywords: Bioinformatics

$133,332

REsolving Systems Epigenomes of T-cells in Autoimmune and Inflammatory Diseases

Co-investigatorCIHR2015Team Grant: Epigenomics of Complex Diseases

Principal investigators: Pastinen, Tomi; Laprise, Catherine

Keywords: Epigenomics

$388,170

Computational inference and analysis of ancestral genomes

Principal investigatorNSERC2013Discovery Grants Program - Individual

Principal investigators: Blanchette, Mathieu

$414,000

Computational inference and analysis of ancestral genomes

Principal investigatorNSERC2013Discovery Grants Program - Accelerator Supplements

Principal investigators: Blanchette, Mathieu

$120,000

Computing infrastructure for bioinformatics web services

Principal investigatorNSERC2012Research Tools and Instruments - Category 1 (<$150,000)

Principal investigators: Blanchette, Mathieu

$40,173

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

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Mathieu Blanchette

Research

Latest papers

Latest funding

Protocol for telomere-to-telomere assembly of Borrelia genomes using a hybrid method.

Telomere-to-telomere assembly detects genomic diversity in Canadian strains of Borrelia burgdorferi.

H3K27me3 spreading organizes canonical PRC1 chromatin architecture to regulate developmental programs.

GraphyloVar: predicting the impact of non-coding variants using a multi-species sequence model.

RobusTAD: reference panel based annotation of nested topologically associating domains.

A multivariate approach to identify association between peripheral blood DNA methylation and cerebrospinal fluid biomarkers of Alzheimer disease.

Improving microbial phylogeny with citizen science within a mass-market video game.

Graphylo: A deep learning approach for predicting regulatory DNA and RNA sites from whole-genome multiple alignments.

R3Design: deep tertiary structure-based RNA sequence design and beyond.

TULIPs decorate the three-dimensional genome of PFA ependymoma.

Machine learning approaches to mine evolving 3D genomes

Functional non-coding RNA genes conferring beneficial traits to Camelina

Computational methods and databases to identify small RNA-binding molecules regulating gene expression.

System-wide environmental perturbations transform understanding of relationships between high-dimensional data, exposures, and phenotypes

3D Chromosomal structure analysis via extended Markov Chain Monte Carlo algorithms

Crowdsourcing Genomic Databases.

REsolving Systems Epigenomes of T-cells in Autoimmune and Inflammatory Diseases

Computational inference and analysis of ancestral genomes

Computational inference and analysis of ancestral genomes

Computing infrastructure for bioinformatics web services

Frequent collaborators

Jacek Majewski

Nada Jabado

David Langlais

Tomi Pastinen

Maya Saleh

Marco Gallo

Guillaume Bourque

Philippe Gros

Jason Karamchandani

Elin Grundberg

Vincent Ferretti

Christopher Fernandez Prada

Livia Garzia

Martin Olivier

Jason Karamchandani

Mark Lathrop

Martin Olivier

Nada Jabado

Erwin Schurr

Claudia Kleinman

Doina Precup

Pierre Billon

Sebastien Perreault

Samantha Gruenheid

Bhushan Nagar

Mathieu Lupien

Robert Sladek

Jack Greenblatt

Nicole Beauchemin