Lectures and seminars Guest seminar - Johan Henriksson, Umeå University

11-06-2024 2:00 pm - 3:00 pm Add to iCal
Campus Solna Nils Ringertz, Biomedicum, Solnavägen 9, Karolinska Institutet, Solna

Title: What can single-cell ATAC-seq tell us about immune cells? Down the rabbit hole of telomeres.

Most single-cell atlases to date have been performed using RNA-seq, which provides the transcriptome view of biology. ATAC-seq, the less common cousin, has mainly been used to infer upstream transcription factors. But can we do more things with it? Here I will present a failed attempt at measuring telomere length, but the reasons why are all the more interesting. The enzyme Tn5 might not do what you think it does; and common single-cell cell cycle annotation might be misguiding. How should we think about the cell cycle, and to what extent can we separate it from other biological processes? Examples will be covered, ranging from monocytes, B cells, to CD4 T cells.

Relevant publications (missing some of the follow-up work):

https://www.biorxiv.org/content/10.1101/2023.03.19.533267v1.full

https://www.biorxiv.org/content/10.1101/2024.01.05.573875v1.full

Bio: Johan Henriksson is a mechanical engineer by training, who haphazardly ended up first at Karolinska Institute as a PhD, then at Sanger institute (UK) for a postdoc. He is now a group leader at Umeå university after being recruited by MIMS, focusing on single-cell multiomics, CRISPR screening, and bioinformatics methods development

Host: Maria Kasper

Contact

Maria Kasper Principal Researcher