Check out our work on RNA structure in introns! Testing >100k base pairing patterns, we found that RNA structure can predictably tune gene expression. Just by changing intron sequence, we see a dynamic range of regulation comparable to messing e.g. with promoters. @karlaneugebauer.bsky.social

bioRxivpreprint@biorxivpreprint.bsky.social · 9mo ago

Control of gene output by intron RNA structure https://www.biorxiv.org/content/10.1101/2025.11.08.687378v1

Cool analysis by Leo Scharfen and team in the Neugebauer lab...

AI x Bio Discovery@aixbiobot.bsky.social · 9mo ago

Control of gene output by intron RNA structure [new] Intron RNA structure significantly impacts gene output by modulating splicing efficiency, particularly near splice sites. Structure prediction models explain observed outcomes.

Fun news: I'm starting my research group at @rti-umasschan.bsky.social as the inaugural Maraganore Fellow! Our lab will focus on the RNA sequence-structure-function relationship in the cellular environment. Visit our website to explore open positions: schaerfenlab.com #RNA #Hiring #PostbacJobs

Tracking the folding of RNA at its birth

Tracking the folding of RNA at its birth

In this issue of Molecular Cell, Schärfen et al. describe an advanced RNA structure-probing technology called CoSTseq that enables transcriptome-wide detection of nascent RNA base pairing during transcription in living yeast cells.

dlvr.it

Here is our paper showing in vivo folding of nascent RNA right after synthesis, published now in @cp-molcell.bsky.social! With @karlaneugebauer.bsky.social, @isaac-vock.bsky.social, @mattdsimon.bsky.social www.cell.com/molecular-ce...

Rapid folding of nascent RNA regulates eukaryotic RNA biogenesis

Schärfen et al. develop a method to measure the structure of nascent RNAs during their synthesis by RNA polymerases. Base pairing occurs rapidly in cells, revealing the strong regulatory potential of ...

cell.com

I'm excited to share the preprint for the first chunk of my PhD work! We combined DMS structure probing with nascent RNA enrichment to report high-resolution, dynamic structures of transcripts just after synthesis - inside cells. @karlaneugebauer.bsky.social www.biorxiv.org/content/10.1...

Rapid folding of nascent RNA regulates eukaryotic RNA biogenesis

An RNA′s catalytic, regulatory, or coding potential depends on RNA structure formation. Because base pairing occurs during transcription, early structural states can govern RNA processing events and d...

biorxiv.org