Benoukraf Lab
Integrative Omics Approaches to Studying Epigenomic Drift in Disease
Our hybrid laboratory (combining wet and dry methods) focuses on developing computational tools and producing sequencing datasets for analyzing multi-omics interactions in the context of epigenomics drift.
Our research is divided into three main axes:
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Investigating the chromatin dynamics regulated by transcription factors in the context of epigenomic drift.
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Investigating the contribution of the microbiome in the epigenomic drift.
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Investigating the contribution of the epigenomic drift in genome instability.
Overall, using integrative approaches, our laboratory’s goal is to deepen our understanding of epigenomic drift and its underlying mechanisms. By analyzing these different omics layers, we aim to better describe and understand the role of epigenomic drift in pathophysiology.
NanoVar
Structural variant caller for low-depth Nanopore Sequencing in Patients’ samples
MethMotif
A transcription factor binding motifs database coupled with DNA methylation profiles
forkedTF
ForkedTF is an R-library that introduces Forked-PMW and Forked-Sequence Logos to provide a more comprehensive depiction of the sequence affinity of a TF of interest
TFRegulomeR
Characterization of transcription factors’ context-specific features and functions
Human Genetics & Genomics/Cancer & Development Seminar Series
Modules:
MED 6400, 6401, 6402, 6403: Msc students
MED 6410, 6411, 6412, 6413: PhD students
Every Monday from Sep. 11th to Dec. 18th, 2023, at 12:00pm (check D2L for schedule).
Memorial University of Newfoundland
Impact de la méthylation de l’ADN sur la régulation transcriptionnelle
Biologie computationnelle des systèmes
6 Décembre 2023 15h à 18h
Université Saint Joseph de Beyrouth
DNA sequencing technologies
Module CDM5104
January 27th 2023 4.00pm – 6.00pm.
National University of Singapore
Future of Genetics
Class of 2025 / Phase 3 Schedule
Future of Genetics
January 20th, 2023 11.30am (1M101)
Memorial University of Newfoundland
DNA sequencing technologies
Module MED 6591
November 29th 2022, 2.00pm – 5.00pm
Memorial University of Newfoundland
Touati Benoukraf, PhD
Dr. Akinola A. Alafiatayo
MoH-TFRI / MITACS Post Doctoral Fellow
Omics in Colorectal Cancer
Dr. Hayley Alloway-Pike
Post Doctoral Fellow
Chromatin Structure
Dr. Modeline Longjohn
MoH-TFRI / MITACS Post Doctoral Fellow
Cancer Bioinformatics
Zia Hasan
PhD Student (Neuro – Qi lab)
Alzheimer’s single cell omics interplays
Matthew Dyer
PhD Student (Genetics)
DNA methylation dynamics
MethMotif maintenance
Asmaa Mahmoud
PhD student (Genetics)
Characterization of structural variants and repetitive elements
Tian Qin
PhD Student (Neuro – Qi lab)
Dynamics of single-cell brain epigenomics during fear communication
Sofiia Shapoval
Master’s Students (Genetics)
Transcription factors and DNA methylation interplays
Chen Xiang
Master’s Student (Comp. Sci.)
Z-stack images processing
Gastongay Siu
Master’s Student (Genetics)
Computational epigenomics methods
Jason Huan
Professional Associate (Invited)
Full-stack software developer
July 25, 2023 @ 10X Genomics user group meeting | Very proud to see our former students’ success in the industry! Nice job, Quy & Cheng Yong!
July 5-7, 2023 | Congratulations to Asmaa, Matthew, and Gaston for receiving awards during the BioMedicine 2023 symposium!
May 26, 2023 | Very delighted to have shared science with high school students during Discovery Day @ Memorial University. We hope we were able to instill a passion for genomics in these future bright scientists.
April 2023 | Very delighted to meet Fred Fox, Terry Fox‘s brother, who was a Canadian athlete, humanitarian, and cancer research activist. The Terry Fox Research Institute, which was named in honor of Terry Fox, is a key player in cancer research in Canada, and one of our sponsors.
Seminar on structural variations in Leukemia. Invited speakers: Touati Benoukraf.
TAGC, Aix-Marseille University, France | December 16, 2022
Conference on Microbiome. Poster presentation: Akinola A. Alafiatayo.
Cold Spring Harbor, NY, USA | October 25 – 29, 2022
Invited speaker (TB) at the Toronto Bioinformatics Users Group seminar.
Toronto, ON, Canada | Feb. 24th, 2021.