Leo Schärfen
@leoschaerfen.bsky.social
Maraganore Fellow @RTI, UMass Chan
https://schaerfenlab.com/
https://schaerfenlab.com/
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
Control of gene output by intron RNA structure https://www.biorxiv.org/content/10.1101/2025.11.08.687378v1
November 10, 2025 at 5:32 PM
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
Reposted by Leo Schärfen
Cool analysis by Leo Scharfen and team in the Neugebauer lab...
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.
Intron RNA structure significantly impacts gene output by modulating splicing efficiency, particularly near splice sites. Structure prediction models explain observed outcomes.
November 10, 2025 at 4:11 PM
Cool analysis by Leo Scharfen and team in the Neugebauer lab...
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
Visit our website to explore open positions: schaerfenlab.com
#RNA #Hiring #PostbacJobs
July 22, 2025 at 4:19 PM
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
Visit our website to explore open positions: schaerfenlab.com
#RNA #Hiring #PostbacJobs
Reposted by Leo Schärfen
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
April 17, 2025 at 7:15 PM
Tracking the folding of RNA at its birth
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...
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 ...
www.cell.com
March 26, 2025 at 1:39 PM
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...
With @karlaneugebauer.bsky.social, @isaac-vock.bsky.social, @mattdsimon.bsky.social
www.cell.com/molecular-ce...
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...
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...
www.biorxiv.org
November 27, 2024 at 1:48 PM
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...
www.biorxiv.org/content/10.1...