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Scientific Conference - David Cook

Transcriptional dynamics of epithelial-mesenchymal transition using highly multiplexed scRNA-seq

Wednesday 8 July 2020 from 10:00 at 11:45


  • David Cook, MSc
    • PhD candidate, Barbara Vanderhyden Lab, Cancer Therapeutics Program, Ottawa Hospital Research Institute

Zoom conference
Password: 296772

Epithelial-mesenchymal plasticity contributes to many biological processes, including tumor progression. Various epithelial-mesenchymal transition (EMT) responses have been reported and no common, EMT-defining gene expression program has been identified. Leveraging highly multiplexed single-cell RNA sequencing (scRNA-seq), we performed a comparative analysis of EMT dynamics, measure expression profiles of 103,999 cells from 960 samples, comprising 12 EMT time course experiments and independent kinase inhibitor screens for each. In this presentation, I will highlight our findings from this work, but will also broadly discuss benefits of sample multiplexing in scRNA-seq experiments and how it can be implemented in your own experimental designs.

David completed his undergraduate studies in physiology at the University of Ottawa. Following his degree, he completed a MSc studying chromatin remodelling in embryonic stem cells. He is now a fourth year PhD student in the Vanderhyden lab at the Ottawa Hospital Research Institute (OHRI) studying cellular plasticity, with a primary focus on the epithelial-mesenchymal transition. With an interest in applying high-throughput genomics approaches to study these topics, David was the first to perform scRNA-seq at the OHRI and recently adopted approaches for multiplexing that enable screen-scale scRNA-seq experiments.

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Updated on 6/9/2020
Created on 6/9/2020
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