Bioinformatics and Computational Methods SIG Seminar

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Join members of the Bioinformatics & Computational Approaches SIG for this SIG seminar. In this webinar, Paul W. Hook, PhD, former leader of the Bioinformatics SIG, provides insight into his current work using cleavage under targets and release using nuclease (CUT&RUN) to measure protein-DNA binding with nanopore sequencing. Dr. Hook will introduce CUT&RUN, detail computational analysis while highlighting software used, present results, and explain how this method may be used in the future. A time for Q&A will follow the presentation.
 
The focus of the Bioinformatics & Computational Methods SIG is on computational approaches for analyzing and interpreting genetics and genomics data. Topics include statistical genetics methods, polygenic risk scores, GWAS, RNA-seq, ATAC-seq, and much more.


Overview of Presentation

  • Introduce CUT&RUN and outline a typical CUT&RUN analysis pipeline
  • Highlight how typical CUT&RUN analysis was adapted to CUT&RUN performed with nanopore sequencing
  • Emphasize potential future uses of this method

Paul W. Hook, PhD

Assistant Editor

AJHG

Minna Kaikkonen-Määttä, PhD (Moderator)

Professor at A.I.Virtanen Institute

University of Eastern Finland

Minna Kaikkonen-Määttä obtained her Bachelor's degree in Cellular Biology and Physiology from the Claude Bernard University Lyon 1, France, in 2002 and Master’s degree in Molecular Biology from University of Jyväskylä, Finland, in 2005. She obtained her PhD in Molecular Medicine under the supervision of Prof. Seppo Ylä-Herttuala in Kuopio in 2008. Her doctoral studies were focused on “Engineering Baculo- and Lentiviral Vectors for Enhanced and Targeted Gene Delivery”. She did her postdoctoral studies with Prof. Christopher Glass at University of California San Diego where she shifted her research focus into transcriptional gene regulation and enhancer RNAs supported by the Young Investigator Award from Leducq Foundation. She started her own lab in 2015 at the University of Eastern Finland with a focus on gene and cell level understanding of atherosclerosis using state-of-the-art next generation sequencing methods. Currently she is a Professor in Cardiovascular Genomics and runs a lab of 20 members while acting as a Director of the A.I.Virtanen Research Institute and Single Cell Genomics Core. She has published over 100 peer-reviewed articles with ~6000 citations (H-index 34). She has received over 8.5 million in research funding and is currently supported by the prestigious European Research Council Consolidator Grant, Academy of Finland, Finnish Foundation for Cardiovascular Research and Sigrid Juselius Foundation. She is the President of the Finnish Society of Atherosclerosis and member of the ESC working group on Atherosclerosis and Vascular Biology, Scandinavian Society of Atherosclerosis, and Membership Engagement Committee of the American Society of Human Genetics. 

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Bioinformatics & Computational Methods SIG Seminar
09/17/2024 at 12:00 PM (EDT)  |  Recorded On: 09/17/2024  |  55 minutes
09/17/2024 at 12:00 PM (EDT)  |  Recorded On: 09/17/2024  |  55 minutes Live webinar event