Excited to share a new review by @kocherlab.bsky.social and me:
Nature-inspired neuroscience
We discuss diverse sensory systems and behaviors across the animal kingdom and argue for their integration into neuroscience. New tools in diverse systems are making this possible ✨
tinyurl.com/y5y9du27
Great summary by @philipcball.bsky.social! Our findings certainly don’t invalidate the central dogma, but rather demonstrate an unexpected (and cool!) structural mechanism by which a sequence-specific DNA is created in a cell. (1/6)
"We find that while TAD boundaries pair more frequently than non-boundary regions, these interactions are infrequent and are uncorrelated with transcriptional activity of genes within the TAD"
elifesciences.org/articles/110...
A new study shows how different regulatory genetic elements control when a key developmental gene is active in the body.
The findings could explain subtle differences seen in patients with congenital limb malformations, for which the underlying disease mechanisms often remain unknown.
The number of grant applications is rising sharply. Our capacity for their evaluation isn’t.
ERC President Maria Leptin explains why stricter resubmission limits are being introduced for 2027 calls and what they mean for applicants.
🔗 link.europa.eu/xF7kjc
We are finally putting the final touches on an operationally complete mapping of regulatory DNA via DNase I in both human (>4,000 samples) and mouse. To interact with the samples we created this neat browser interface complete with a chatbot!
I don’t know if you saw the MASSIVE news announced by @erc.europa.eu today: from now on, if you get a B at step 1 you are eligible to apply at N+3(!!!) years. Say you got a B in STG2026 step 1, you thought you could apply in STG2028, but no: only in STG2029! erc.europa.eu/news-events/...
Oben: Porträt von Jonathan Fröhlich vor dem Hintergrund einer mit bunten Klebenotizen beklebten Wand. Unten: Die Überschrift des im Post verlinkten Artikels "Ressourcenreiches Repositorium“, gefolgt von dessen Vorspann „Wie finde ich gute Projekte, wie halte ich spannende Vorträge, wie werde ich ein guter Mentor? Jonathan Fröhlich hat eine Liste mit über 200 Tipps zusammengestellt.“ Links daneben befindet sich ein Icon mit Smartphone und Magazinseite sowie der Schriftzug „Kostenlos online lesen!“. In der rechten unteren Ecke befindet sich das Laborjournal-Logo.
Ausschnitt aus dem verlinkten Artikel.
Wissenschaft umfasst neben Labor und Publikationen auch Präsentationen, Mentoring und Karriereplanung. Jonathan Fröhlich stellt dafür über 200 Ressourcen frei zur Verfügung und teilt somit eine 8 Jahre gefütterte Schatzkiste: www.laborjournal.de/editorials/3...
#Laborjournal #LifeSci #OpenScience
Danke für das Gespräch!
Direkt zu den Ressourcen:
github.com/jjfroehlich/...
We're looking for a group leader in functional genomics at @humantechnopole.bsky.social
Super exciting science, cutting edge facilities, very competitive package. More info here:
careers.humantechnopole.it/job/Senior-R...
Opened up Zotero to find it now reads papers aloud to me
In this interview, @juliabatki.bsky.social, FMI’s newest group leader, reflects on the early curiosity that drew her to science, why FMI is the right home for her lab, how studying cell clearance could help us understand disease, and her love of improv.
www.fmi.ch/news-events/...
“wait… it parses the history too??”
yep 😄 OpenCloning now imports SnapGene files with the full cloning workflow, not just the final construct.
🎬 sound on
opencloning.org
Agents for comp bio are advancing rapidly, but evals are lagging. Current benchmarks can be overly prescriptive. Full analysis vignettes are hard to verify. We introduce CompBioBench: 100 diverse, challenging, verifiable tasks. We benchmark Codex and Claude Code.
biorxiv.org/content/10.6...
1/9
Jack Szostak "All of these things frighten me, and they should frighten you as well. I made the decision to create a life for myself here, because I viewed this as a place that rewarded determination, hard work, and integrity. It still has a chance to be that place again."
🚨I could not be more excited to share our new preprint on saturation genome editing of the small nuclear RNA (snRNA) RNU4-2:
www.medrxiv.org/content/10.1...
A super fun collaboration with incredible duo @gregfindlay.bsky.social @joachimdejonghe.bsky.social from @crick.ac.uk
🧬🖥️🩺
🧵1/12
Data. A mouse model of glioblastoma leads to inevitable death within 50 days. Delivery of HSV+TK plus IL2, driven by a strong and specific synthetic superenhancer, allows almost all mice to survive even after nearly 150 days. From Fig5 of Koeber et al 2026
Just look at this graph (Fig 5A,B from Koeber et al).
Amazing.
Congratulations to the Pollard lab and all authors.
www.nature.com/articles/s41...
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...
If you shear the input DNA to 15kb or so you should get a 40x genomes per flow cell, although the multiplexed libraries might reduce that. By the time you mess around with the adaptive sequencing or Cas9 enrichment it'd probably be similar price, plus you'd get the rest of the genome.
Went down the same rabbit hole, but from everything I've been told/tried, the answer is no, at least for the human genome. A handful of loci requires a 10^5 enrichment and adaptive sampling can maybe do 20-50x. Would need prior locus enrichment, not sure there is any solid method for that scale yet.
I have a question for ONT users: I want to sequence only four unique loci (5-10kb), but in several, multiplexed samples. Is this a feasible application for adaptive sequencing? If you want more details about the experimental set up, I'd be happy to talk about it in the DMs
Why bioRxiv
There’s a broad distribution of citation counts that make up an impact factor (stuartcantrill.com/2015/12/10/c...) - so the IF says little about how much any given paper will be cited. Point here is that the same paper in different journals gets cited differently.
fields. In fact, I believe that by combining information from the citation graph with other metrics like download counts and social media attention, Google scholar could come up with much much better ways of measuring influence/importance of papers, making journal impact factors superfluous, 15/n
🚨In our new preprint we show that miRNAs act within a precise temporal window to control cell fate decisions in the human forebrain. 🧠
A study of miRNA expression dynamics and functions during early human brain development. @mdc-bimsb.bsky.social
Check it out! www.biorxiv.org/content/10.6...
What protects individuals from developing blood cancers?
Thrilled to share my work in @bloodgenes.bsky.social lab, describing inherited resilience protecting blood stem cells from clonal hematopoiesis by modifying RNA regulation. 🧵👇 (1/n)
www.biorxiv.org/content/10.1...
📢 New preprint from the FunGen lab @svergult.bsky.social on how non-coding structural variants disrupt FOXG1 regulation during early neurodevelopment. Great teamwork from Lisa Hamerlinck and everyone in the lab! Thread below👇
www.medrxiv.org/content/10.1...
#GeneRegulation #RareDisease #Epigenomics
Can CRISPR edits enable precise tuning of plant gene expression? We think: yes.
In our newest manuscript, we measured the effects of >30,000 CRISPR-like promoter mutations in sorghum protoplasts.
