PhD Student at the Stein Aerts Lab of Computational Biology. Studying brain genomics
Niklas Kempynck
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This work was done together with @seppedewinter.bsky.social, and we’d like to thank @casblaauw.bsky.social, @lukasmahieu.bsky.social, Vasilis, @erencaneksi.bsky.social, @samdieltiens.bsky.social, @darinaabaffy.bsky.social and all the amazing co-authors for their help...
Really amazing work and a big effort by Olga, Alex, Julie, Koen and many others. Check it out for sure!
Compared to the preprint we added robustness analyses and more benchmarking of options within CREsted and of CREsted features (like motif identification) to traditional methods. We also aimed to position it well in the landscape of sequence-based modeling methods.
CREsted is finally out! You can find the article, together with a summarizing Research Briefing, in thread. 🦎
... and to @steinaerts.bsky.social for his guidance throughout the project.
Fun fact: CREsted is named after the great crested newt, which has a crested back resembling scATAC peaks. This was inspired by the (alpine) newts I occasionally encounter in my parents' garden 🤗
Niklas Kempynck
New preprint @cxqiu.bsky.social @jshendure.bsky.social ! Can we learn regulatory grammars of human cell types — by training on mouse development and transferring across 241 mammalian genomes? Introducing STEAM & a whole-organism scATAC-seq atlas from E10 to birth.
www.biorxiv.org/content/10.6...
