Author

Marie-Michelle Simon

McGill Genome Centre

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

Click to filter author papers

Genetics· 3 Genomics· 2 Bioinformatics· 1

Signature Assays, Organisms & Methods

Click to filter · or open tag

Organism:human· 5 Approach:statistical model· 5 Research Focus:differential expression· 3 Assay:DNA methylation· 3 Assay:ATAC-seq· 2 Assay:bulk RNA-seq· 2 Assay:ChIP-seq· 2 Approach:experimental assay· 2

Frequent Co-Authors

Albéna PramatarovaiD· 3 shared Guillaume BourqueiD· 3 shared Tomi PastineniD· 3 shared Tony KwaniD· 3 shared Alain PacisiD· 2 shared Cristian GrozaiD· 2 shared David Brownlee· 2 shared David BujoldiD· 2 shared

Activity by Year

2018-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 40 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

3 shared papersBioinformatics

Albéna PramatarovaORCID

Mutual co-authors in cluster

Author profile →

6 papers

Recent·Most cited

EpiATLAS - a reference for human epigenomic research

Quirin Manz, Misha Bilenky, Dennis Hecker, Nihit Aggarwal, Juliana Estefania Arcila-Galvis, Shamim Ashrafiyan, Nina Baumgarten, Fatemeh Behjati Ardakani, Paulo R. Branco Lins, Charles E. Breeze, David Brownlee, David Bujold, Alec R. Chapman, Savio Ho-Chit Chow, Tevfik Umut Dincer, , Samuel A. J. R. Aparicio

EpiATLAS provides a comprehensive collection of human reference epigenomes to advance epigenomic research and understanding of cellular function and disease.

bioRxiv · Jun 26, 2026 · PreprintGenomics

Genome graphs detect human polymorphisms in active epigenomic states during influenza infection

Cristian Groza, Xun Chen, Alain Pacis, Marie-Michelle Simon, Albéna Pramatarova, Katherine A Aracena, Tomi Pastinen, Luis Bruno Barreiro, Guillaume Bourque

The paper uses genome graphs to detect polymorphic mobile elements in active epigenomic states during influenza infection, revealing novel peaks and modifying quantitative trait loci estimates.

Cell Genomics · Apr 7, 2023Peer-reviewedBioinformatics

Epigenetic variation impacts ancestry-associated differences in the transcriptional response to influenza infection

Katherine A Aracena, Yen‐Lung Lin, Kaixuan Luo, Alain Pacis, Saideep Gona, Zepeng Mu, Vania Yotova, Renata Sindeaux, Albéna Pramatarova, Marie-Michelle Simon, Xun Chen, Cristian Groza, David R. Lougheed, Romain Gregoire, David Brownlee, , Luis Bruno Barreiro

The paper shows ancestry-related differences in transcriptional response to influenza are driven by epigenetic variation and genetic control of enhancer activity.

bioRxiv · May 10, 2022 · PreprintGenetics

Application of ATAC-Seq for genome-wide analysis of the chromatin state at single myofiber resolution

Korin Sahinyan, Darren M. Blackburn, Marie-Michelle Simon, Felicia Lazure, Tony Kwan, Guillaume Bourque, Vahab D. Soleimani

The paper applies single myofiber ATAC-Seq to analyze chromatin state changes in skeletal muscle under different conditions, revealing differences in chromatin accessibility between resting and regenerating myofibers.

eLife · Feb 21, 2022Peer-reviewedGenetics

GSDMA drives the most replicated association with asthma in naïve CD4+ T cells

Anne‐Marie Madore, Lucile Pain, Anne‐Marie Boucher‐Lafleur, Jolyane Meloche, Andréanne Morin, Marie-Michelle Simon, Bing Ge, Tony Kwan, Warren Cheung, Tomi Pastinen, Catherine Laprise

The paper identifies GSDMA as a gene in naive CD4+ T cells that modulates expression and methylation levels, driving the 17q12-21 asthma association.

bioRxiv · Sep 19, 2019 · PreprintGenetics

An Atlas of Human and Murine Genetic Influences on Osteoporosis

John A. Morris, John P. Kemp, Scott E. Youlten, Laetitia Laurent, John G. Logan, Ryan Chau Chia Chai, Nicholas A. Vulpescu, Vincenzo Forgetta, Aaron Kleinman, Sindhu T. Mohanty, C. Marcelo Sergio, Julian M.W. Quinn, Loan Nguyen‐Yamamoto, Aimée-Lee Luco, Jinchu Vijay, , John Brent Richards

This paper identifies 518 genetic loci associated with bone mineral density and fracture risk, validates causal genes in mice, and provides insights for osteoporosis drug development.

Nature Genetics · Dec 17, 2018Peer-reviewedGenomics