Jacques Corbeil

Membre affilié

Professeur titulaire, Université Laval

Linearis Venture and Labs

Sujets de recherche

Apprentissage automatique appliqué

Biologie computationnelle

IA et santé

Site web

Google Scholar

Biographie

Le Dr Jacques Corbeil se concentre sur l'utilisation des dernières techniques de bio-informatique et d'apprentissage automatique pour faciliter le diagnostic, le pronostic et la réponse au traitement. Les techniques modernes de génomique et de métabolomique génèrent un déluge de données qui doivent être interprétées à l'aide de nouvelles approches informatiques. Le Dr Corbeil utilise des instruments et des méthodologies de pointe pour faciliter l'interprétation de données complexes, y compris la spectrométrie de masse à haut débit, en particulier la métabolomique et le séquençage next-gen.

Les recherches du Dr Corbeil portent notamment sur la manière dont les micro-organismes infectieux interagissent avec leur hôte, sur les effets des antibiotiques sur notre flore microbienne et sur l'environnement, et sur la manière de concevoir de petites molécules et des médicaments pour interférer avec des fonctions microbiennes spécifiques et avec la progression du cancer. Travaillant à l'interface de l'apprentissage automatique et des sciences omiques, il possède une expertise dans l'intégration des données omiques et se spécialise dans l'analyse de données massives appliquée aux maladies infectieuses et au cancer. Le Dr Corbeil collabore avec de nombreuses industries pour améliorer leurs processus et mettre en œuvre des stratégies d'intelligence artificielle. Depuis 2004, le Dr Corbeil est titulaire de la Chaire de recherche du Canada en génomique médicale (niveau 1).

Publications

Pharmaco-nutraceutical improvement of the response to obeticholic acid with omega-3 polyunsaturated fatty acids

Audrey-Anne Lavoie

Ariane Thérien

Anisia Silva

Emanuel Paré

Anna Ciešlak

William Gagnon

Clémence Desjardins

Mélanie Verreault

Jocelyn Trottier

Marie-Claude Vohl

Jean-Philippe Drouin-Chartier

Jacques Corbeil

Alexandre Caron

Olivier Barbier

2025-07-22

Biochemical Journal (publié)

doi.org

Pharmaco-nutraceutical improvement of the response to obeticholic acid with omega-3 polyunsaturated fatty acids.

Audrey-Anne Lavoie

Ariane Thérien

Anisia Silva

Emanuel Paré

Anna Ciešlak

William Gagnon

Clémence Desjardins

Mélanie Verreault

Jocelyn Trottier

Marie-Claude Vohl

Jean-Philippe Drouin-Chartier

Jacques Corbeil

Alexandre Caron

Olivier Barbier

Obeticholic acid (OCA) is the second line therapy for primary biliary cholangitis. While efficient in promoting BA detoxification and limiti… (voir plus)ng liver fibrosis, its clinical use is restricted by severe dose-dependent side effects. We tested the hypothesis that adding n-3 polyunsaturated fatty acids, eicosapentaenoic (EPA) and docosahexaenoic (DHA) acids to OCA may improve the therapeutic effect of the low drug dosage. Several liver cell lines were exposed to vehicle, low or high OCA dose (1-20μM) in the presence or absence of EPA/DHA for 24H. To induce ER stress, apoptosis, and fibrosis, HepG2 cells were exposed to a 400μM BA mixture or to 2ng/mL TGF-β. For inflammation analyses, THP-1 cells were activated with 100ng/mL LPS. The impact OCA+EPA/DHA was assessed using transcriptomic (qRT-PCR), proteomic (ELISA, caspase-3), and metabolomic (LC-MS/MS) approaches. The addition of EPA/DHA reinforced the ability of low OCA dose to down-regulate the expression of genes involved in BA synthesis (CYP7A1, CYP8B1) and uptake (NTCP) and to up-regulate MRP2 & 3 genes expression. EPA/DHA also enhanced the anti-inflammatory response of the drug by reducing the expression of the LPS-induced cytokines: TNFα, IL-6, IL-1β and MCP-1 in THP-1 macrophages. OCA+EPA/DHA decreased the expression of BIP, CHOP and COL1A1 genes and the caspase-3 activity. EPA+DHA potentiate the response to low OCA doses on BA toxicity, and provide additional benefits on ER stress, apoptosis, inflammation and fibrosis. These observations support the idea that adding n-3 polyunsaturated fatty acids to the drug may reduce the risk of dose-related side effects in patients treated with OCA.

2025-07-22

Biochemical Journal (publié)

doi.org

On Selecting Robust Approaches for Learning Predictive Biomarkers in Metabolomics Data Sets.

Pier-Luc Plante

Metabolomics, the study of small molecules within biological systems, offers insights into metabolic processes and, consequently, holds grea… (voir plus)t promise for advancing health outcomes. Biomarker discovery in metabolomics represents a significant challenge, notably due to the high dimensionality of the data. Recent work has addressed this problem by analyzing the most important variables in machine learning models. Unfortunately, this approach relies on prior hypotheses about the structure of the data and may overlook simple patterns. To assess the true usefulness of machine learning methods, we evaluate them on a collection of 835 metabolomics data sets. This effort provides valuable insights for metabolomics researchers regarding where and when to use machine learning. It also establishes a benchmark for the evaluation of future methods. Nonetheless, the results emphasize the high diversity of data sets in metabolomics and the complexity of finding biologically relevant biomarkers. As a result, we propose a novel approach applicable across all data sets, offering guidance for future analyses. This method involves directly comparing univariate and multivariate models. We demonstrate through selected examples how this approach can guide data analysis across diverse data set structures, representative of the observed variability. Code and data are available for research purposes.

2025-06-12

Analytical Chemistry (publié)

doi.org

Associations between circulating amino acids and metabolic dysfunction‐associated steatotic liver disease in individuals living with severe obesity

Ina Maltais‐Payette

Jérôme Bourgault

Marie‐Frédérique Gauthier

Laurent Biertho

Simon Marceau

François Julien

Patricia L. Mitchell

Christian Couture

Francis Brière

Jacques Corbeil

Benoît J. Arsenault

André Tchernof

2025-01-27

Physiological Reports (publié)

doi.org

Turncoat antibodies unmasked in a model of autoimmune demyelination: from biology to therapy

Reza Taghipour-Mirakmahaleh

Françoise Morin

Yu Zhang

Louis Bourhoven

Louis-Charles Béland

Qun Zhou

Julie Jaworski

Anna Park

Juan Manuel Dominguez

Jacques Corbeil

Eoin P Flanagan

Romain Marignier

Catherine Larochelle

Steven Kerfoot

Luc Vallières

Autoantibodies contribute to many autoimmune diseases, yet there is no approved therapy to neutralize them selectively. A popular mouse mode… (voir plus)l, experimental autoimmune encephalomyelitis (EAE), could serve to develop such a therapy, provided we can better understand the nature and importance of the autoantibodies involved. Here we report the discovery of autoantibody-secreting extrafollicular plasmablasts in EAE induced with specific myelin oligodendrocyte glycoprotein (MOG) antigens. Single-cell RNA sequencing reveals that these cells produce non-affinity-matured IgG antibodies. These include pathogenic antibodies competing for shared binding space on MOG’s extracellular domain. Interestingly, the synthetic anti-MOG antibody 8-18C5 can prevent the binding of pathogenic antibodies from either EAE mice or people with MOG antibody disease (MOGAD). Moreover, an 8-18C5 variant carrying the NNAS mutation, which inactivates its effector functions, can reduce EAE severity and promote functional recovery. In brief, this study provides not only a comprehensive characterization of the humoral response in EAE models, but also a proof of concept for a novel therapy to antagonize pathogenic anti-MOG antibodies.

2024-12-06

bioRxiv (prépublication)

doi.org

Substitution of dietary monounsaturated fatty acids from olive oil for saturated fatty acids from lard increases low-density lipoprotein apolipoprotein B-100 fractional catabolic rate in subjects with dyslipidemia associated with insulin resistance: a randomized controlled trial

Louis-Charles Desjardins

Francis Brière

André J Tremblay

Maryka Rancourt-Bouchard

Jean-Philippe Drouin-Chartier

Jacques Corbeil

Valéry Lemelin

Amélie Charest

Ernst J Schaefer

Benoit Lamarche

Patrick Couture

2024-03-01

American Journal of Clinical Nutrition (publié)

doi.org

Substitution of dietary monounsaturated fatty acids from olive oil for saturated fatty acids from lard increases LDL apolipoprotein B-100 fractional catabolic rate in subjects with dyslipidemia associated with insulin resistance: a randomized controlled trial.

Louis-Charles Desjardins

Francis Brière

André J Tremblay

Maryka Rancourt-Bouchard

Jean-Philippe Drouin-Chartier

Jacques Corbeil

Valéry Lemelin

Amélie Charest

Ernst J Schaefer

Benoit Lamarche

Patrick Couture

2024-03-01

American Journal of Clinical Nutrition (publié)

doi.org

Louis-Charles Desjardins

Francis Brière

André J Tremblay

Maryka Rancourt-Bouchard

Jean-Philippe Drouin-Chartier

Jacques Corbeil

Valéry Lemelin

Amélie Charest

Ernst J Schaefer

Benoit Lamarche

Patrick Couture

2024-03-01

American Journal of Clinical Nutrition (publié)

doi.org

Learning self-supervised molecular representations for drug–drug interaction prediction

Rogia Kpanou

Patrick Dallaire

Elsa Rousseau

Jacques Corbeil

2024-01-30

BMC Bioinformatics (publié)

doi.org

1351. Predictors of Loss of Infectivity Among Healthcare Workers with Primary and Recurrent SARS-CoV-2 infection: An Observational Cohort Study

Stefka Dzieciolowska

Yves Longtin

Hugues Charest

Tonya Roy

Judith Fafard

Inès Levade

Jean Longtin

Leighanne Parkes

Jasmin Villeneuve

Patrice Savard

Jacques Corbeil

Gaston De Serres

Abstract Background Factors associated with loss of infectivity in healthcare workers (HCWs) with COVID-19 are poorly understood. Understand… (voir plus)ing predictive factors could help optimize return-to-work criteria and minimize absenteeism. Methods Prospective observational cohort study of HCWs with COVID-19 conducted between Feb 20 2022 and March 6 2023 in 20 institutions in Montreal, Canada, with clinical/laboratory follow-up on Day 5, 7 and 10 of infection. Infectivity was determined by viral culture (Vero E6 cells) on nasopharyngeal swabs. Predictors of loss of infectivity were investigated by univariate and multivariate logistic regression. Results Overall, 121 participants (79.3% female, mean age 40 years) were recruited. Most (n=107, 88.4%) had received ≥3 vaccines and 20 (16.5%) had a history of prior COVID-19. The proportion of HCWs with a positive viral culture decreased from 71.9% on day 5 of infection to 18.2% on day 10. The proportion of HCWs with a positive RT-PCR decreased from 93.3% (112/120) on day 5 (median Ct value, 23.4 [IQR, 20.6-27.9]) to 61.2% (74/120) on day 10 (median Ct value, 32.5 [IQR, 28.5 to undetectable]). Rapid antigen detection test (RADT) positivity decreased from 81.5% on day 5 to 34.2% on day 10. Participants with recurrent COVID-19 had lower likelihood of infectivity at each visit (OR on day 5, 0.14; 95% CI 0.05-0.40; p 0.001; OR on day 7, 0.04; 95% CI, 0.01-0.33; p=0.003) and none were infective on day 10 (p=0.02). At each visit, recurrent cases had higher median RT-PCR Ct values than primary infections (p 0.03) and were more likely to have a negative RADT result (p 0.01). By multivariate analysis, ongoing infectivity was associated with a RT-PCR Ct value 23 (adjusted OR [aOR] on day 5, 22.75; p 0.001; aOR on Day 7, 182.30; p 0.001; and aOR on Day 10; 24.71; p=0.02). A history of previous COVID-19 was associated with a lower probability of infectivity on Day 5 (aOR, 0.005; p=0.003). By contrast, symptom improvement (including fever) and RADT result were not independent predictors of loss of infectivity. Conclusion A lower RT-PCR Ct value is associated with ongoing infectivity, whereas COVID-19 reinfection is a predictor of loss of infectivity. These findings could help optimize return-to-work algorithms. Disclosures All Authors: No reported disclosures

2023-11-27

Open Forum Infectious Diseases (publié)

doi.org

Invariant Causal Set Covering Machines

Baptiste Bauvin

2023-06-07

ArXiv (prépublication)

doi.org