BioC 2022 - Bringing single cell genomics closer to the clinic for patients with leukemia
Channel: R Consortium
Date: 2022-08-17

Scott Furlan, MD., Physician, Seattle Children's Hospital, and Assistant Professor, Department of Pediatrics, University of Washington School of Medicine, gives his keynote presentation at the Bioconductor Conference 2022. Dr. Furlan presents on Bringing a Single Cell Genomics Closer to the Clinic for Patients with Leukemia. 

Dr. Furlan began the presentation by introducing the concept of measurable residual disease (MRD) focusing on one patient. He gives an overview of the experiment conducted at Seattle Children’s Hospital which included annotation of cell types and motivation for a new cell classifier. Dr. Furlan then continued to share preliminary data and highlighted novel molecular and computational approaches. The presentation continued with Dr. Furlan sharing broader applicability to understanding the biology of acute leukemia and mechanisms of relapse. He followed this by sharing the project's progress and plans for the future. The presentation concludes with a questions and answers session from the audience. 

Link to slides: https://bioc2022.bioconductor.org/presentations/Keynote_Bioc2022_Furlan.pdf 

Main Sections

0:00 Introduction
5:26 A bedside to bench approach to a clinical conundrum
7:22 What is the current status of MRD testing?
10:47 How can we improve?
12:48 Overview of our first experiment 
15:45 Higher than expected numbers of cells expressing cd34
17:24 Co-embedding patient cells with healthy atlas 
18:50 Annotation of cell types
20:52 Motivation for a new cell classifier
23:38 Viewmaster - Softmax regression
27:26 Can we leverage natural genetic variation to improve leukemia detection?
31:40 Can we detect AML mutations in scRNAseq data?
34:12 Can we augment coverage?
35:10 How does this extend to other patients?
38:07 Where are we now?
40:33 Acknowledgements 
40:52 Q&A and closing


More Resources 

Bioconductor Conference Site: https://bioc2022.bioconductor.org/ 
BioC2022 Github: https://github.com/Bioconductor/BioC2022 

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