Corbeil Laboratory

Members

Jacques Corbeil

Principal Investigator

Dr. Jacques Corbeil focuses on using the latest techniques in bioinformatics and machine learning to assist diagnostic, prognostic and response to treatment. Modern genomics and metabolomics techniques generate a deluge of data that needs to be interpreted using novel informatics approaches. Dr. Corbeil is using state-of-the-art instrumentation and methodologies to facilitate the interpretation of complex data, including high throughput mass spectrometry, in particular, metabolomics and next-gen sequencing. Dr. Corbeil’s research includes investigating how infectious microorganisms interact with their host, the effects of antibiotics on our microbial flora and the environment, exploring how to design small molecules and drugs to interfere with specific microbial functions and cancer progression. He has expertise in the integration of omics data. Dr. Corbeil collaborates with many industries to ameliorate their process and implement artificial intelligence strategies. Dr. Corbeil operates at the interface of computer sciences and omics sciences. He specializes in big data analytics applied to infectious diseases and cancer.

Émilie Pic

Lab manager

After a PhD in Cell and Tissue Engineering conducted in France and 5 years of post-doctoral training at Université Laval in Quebec City, Emilie developed a strong expertise in cell and tissue cultures as well as in animal experimentation. Her biomedical background developed through a Master’s degree in biomedical engineering allows her to link biological and computer sciences.

Claudia Carpentier

Postdoctoral Researcher

During her PhD in organic and analytical chemistry, she pursued research applied to the study of bioactive secondary metabolites in plants and lichens from Northern Quebec. Her expertise areas include chromatographic methods development, LC-MS based metabolite profiling and structural characterization of small molecules by using tandem mass spectrometry and NMR. As part of the Corbeil lab, she performs mass spectrometry based metabolomics, and bioinformatics data analysis for the dereplication of metabolites from living organisms.

Jehane Abed

Ph.D. candidate in Microbiology-Immunology

In 2016, Jehane completed a master’s degree in Human Pathology: contagion and prevention from Aix-Marseille Université, Marseille, France. During her Master, she studied colistin resistance in Enterobacteria. While she was performing the latter work her interest in Bioinformatics grew. Since she wanted to pursue a doctorate degree in microbiology and improve her bioinformatic knowledge, she chose a Ph.D project that allowed her to enhance her skills in both subject. She is now as a Ph.D student, studying the gut microbiome of an Inuit cohort from Nunavik (Northern Québec, Canada) aged from 16 to 30 years old.

Baptiste Bauvin

Ph.D. candidate in Informatics

Interested in research since high school, Baptiste pursued a Master's Degree in Theoretical Computer Science alongside an Engineering Degree. Then, after a very motivating internship, he started his PhD in machine learning applied to bioinformatics and found it is one of the most fascinating ways to use his knowledge in ML. Since the beginning of his PhD, he has worked mainly on multi-omic classification tasks while developing scalable and interpretable algorithms custom-tailored for specific datasets focusing mainly on ensemble methods.

Emanuel Paré

Ph.D. candidate in Molecular Medicine

With a strong interest for pharmaceutical and biotechnological research, Emmanuel obtained a Bachelor’s degree in pharmacology and a Master’s degree in cellular biology. After working during 3 years in big and small companies, he joined the team to participate in the generation of large biological datasets and gain experience in molecular biology and bioinformatics. His focus is to develop Organ-On-a-Chip models for mutli-parametric high-throughput assays. By collaborating with multidisciplinary teams in both academia and industry, he wants to build a platform for researchers allowing the collection of large amounts of highly valuable data with minimal manpower.

Francis Brière

Ph.D. candidate in Molecular Medicine

Francis first started to work under Dr. Jacques Corbeil as an undergraduate student in May 2017. The internship taught him the skills needed to run metabolomic experiments using mass spectrometry. After completing his Bachelor’s degree in microbiology in May 2018, he decided to pursue a Master`s degree in molecular medicine. His work focuses on the development of high-throughput mass spectrometry techniques and the application of machine learning tools to mass spectrometry datasets in nutrition.

Minja Velimirovic

Ph.D. candidate in Molecular Medicine

Minja is a PhD candidate working in the laboratory of Dr Jacques Corbeil. Originally from Serbia, she finished her Bachelor’s degree in molecular biology and spent a year in France doing translational research with the special emphasis on the implementation of genome editing technologies for therapeutic purposes, at University Paris Saclay where she obtained her Master’s degree. Her current research focuses on utilizing a suite of novel high-throughput genomic perturbation platforms, CRISPR-based genome editing and single cell RNA-sequencing to better understand platelets biology. During her free time, she likes to stay active and escape the lab to go rock climbing or play tennis.

Sewagnouin Rogia Kpanou

Ph.D. candidate in Informatics

Sewagnouin is a doctoral student in computer science. During her Master's degree in computer science, she focused on predicting drug-drug interaction side effects using artificial intelligence algorithms. Currently, she is working on how to generate targeted monoclonal antibodies for the treatment of bovine mastitis, again using recent advances in the field of artificial intelligence. In addition to her Master's degree in computer science, she has a bachelor's degree in bioinformatics.

Thibaud Godon

Ph.D. candidate in Informatics

Thibaud completed a master's degree in computer science. He is interested in applications of data science and machine learning to science fields, particularly bioinformatics. During his internship with Corbeil Laboratory in 2020, he developed an ensemble learning method suited for untargeted metabolomics data. Now, as a Ph.D student, he continues to work on interpretable machine learning algorithms for high dimensional omics data. His goal is to implement ideas from causal inference methods to improve biomarkers discovery in Omics data.

Élina Francovic-Fontaine

Ph.D. candidate in Molecular Medicine

Élina completed her Bachelor's degree in bioinformatics. As an undergraduate student, she worked at Corbeil Laboratory and developed a strong interest in machine learning. For her Master's degree, she focused on the application of machine learning to metabolomics data and the creation of a web-based interface to produce and analyse machine learning experiments on mass spectrometry metabolomics data. For her Ph.D, she will further the development of the interface by working on developing multi-omics algorithms.

Maxim Maheux

Ph.D. candidate in Molecular Medicine

Maxim obtained a Master’s degree in chemistry focused on metabolomics from Université Laval after completing a technical college diploma in analytical chemistry and a Bacchelor’s degree in organic chemistry. He worked as a researcher for over 10 years at TransBIOTech, a center for research and transfer in biotechnology, and developped numerous characterization methods for natural health products and biopharmaceutical industries. He acquired an expertise in liquid chromatography coupled with triple quadrupole and high-resolution time-of-flight mass spectrometry instruments to analyze complex matrices. He joined Dr Jacques Corbeil’s lab as a Ph.D candidate in Molecular Medecine specialized in lipidomics after studying that field as a doctoral student in Pharmaceutical Sciences.

Juan Manuel Dominguez

Ph.D. candidate in Molecular Medicine

Juan is currently finishing a Bachelor’s degree in bioinformatics and he plans to pursue a Master's Degree afterwards. At Corbeil Laboratory, he has been mostly working on projects that analyze metagenomic data. Recently, he has been studying the core microbiome in both healthy and ill individuals using machine learning tools and statistical methods.

Passionate about algorithms, Vincent’s academic background is very concentrated around the themes of machine learning and more generally artificial intelligence. Thus, he is interested in the application of these mechanisms to medical data. In addition, he also works as a builder and maintainer of libraries to allow the use and the simple implementation of the trained models.

Alumni

Clovis Galiez

(Visitor) Prof.

Paul George

Prof. Laval University

Maxim Déraspe

Postdoctoral fellow

Mazid Abiodoun Osseni

Ph.D.

Prudencio Tossou

Ph.D.

Elsa Rousseau

Prof. Laval University

Pier-Luc Plante

Ph.D.

Nancy Boucher

Research assistant

Lynda Robitaille

M.Sc. MBA, Institut intelligence et données

Anahi Gambino

(Visitor) Ph.D.

Charles Burdet

MD. Ph.D.

Frédéric Raymond

Prof. Laval University

Juho Rousu

(Visitor) Prof. Aalto University

Alexandre Drouin

Ph.D.

Francis Brochu

M.Sc.

Charles Joly Beauparlant

Ph.D.

Sébastien Boisvert

Ph.D.

Sébastien Giguère

Ph.D.

David Paladini

M.Sc.

Miguel Retamal

Ph.D.

Mélissa Sirois

Ph.D.

Thibault Varin

Ph.D.