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olimpiabompadre.bsky.social
@olimpiabompadre.bsky.social
66 followers 130 following 1 posts
Postdoc in the Trono lab@EPFL - interested in all things noncoding and genome regulation
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Reposted
timpetzold.bsky.social
Tim Petzold @timpetzold.bsky.social · Sep 1
Excited to share that the final version of our work on Connexin 41.8 in HSPC specification is out now in @biologyopen.bsky.social!

If you're curious about how a connexin helps turn endothelial cells into blood stem cells, please have a read!

journals.biologists.com/bio/article/...
Connexin 41.8 governs timely haematopoietic stem and progenitor cell specification
Summary: Cx41.8 is necessary to launch the haemogenic program and induce HSPC formation at the correct time during zebrafish development via a ROS-Hif-Notch-Gata2b pathway.
journals.biologists.com
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Reposted
claudiocantu81.bsky.social
Claudio Cantù @claudiocantu81.bsky.social · Jul 15
A 6-year long study from the Lab is finally out @genomeresearch.bsky.social

Mastered by @annanordin.bsky.social in collaboration with Chaitali Chakraborty from @remeseiro-lab.bsky.social

Why is our work Important? Discover it in the quick Bluetorial 👇

genome.cshlp.org/content/earl...
Wnt signaling activation induces CTCF binding and loop formation at cis-regulatory elements of target genes
An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms
genome.cshlp.org
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Reposted
axelvisel.bsky.social
Axel Visel @axelvisel.bsky.social · Jul 16
No new genes needed to fly - just rewire what you have! 🦇🧬

Great new paper from the labs of @fany-real.bsky.social @stemundi.bsky.social @dariloops.bsky.social

doi.org/10.1038/s415...

#EvoDevo #SingleCell #BatWings
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olimpiabompadre.bsky.social
olimpiabompadre.bsky.social @olimpiabompadre.bsky.social · Jul 9
The final chapter of my Pitx1 adventure is out! 1 simple question:”How do SVs that shorten enhancer-promoter distance affect limb development?” We find the impact on transcription, cell populations, epigenetics, and chromatin structure. A labour of joy with @guandrey.bsky.social & all co-authors.
guandrey.bsky.social
Guillaume Andrey @guandrey.bsky.social · Jul 9
Our work bridging enhancer-promoter proximity to phenotypic outcomes in vivo is out! Shout out to @olimpiabompadre.bsky.social, to Marie Kmita's lab, and to all the co-authors. www.nature.com/articles/s41...
Liebenberg syndrome severity arises from variations in Pitx1 locus topology and proportion of ectopically transcribing cells - Nature Communications
Here the authors show that reducing enhancer-promoter distance at the Pitx1 locus increases proportion of Pitx1 forelimb expressing cells, worsening skeletal defects in Liebenberg syndrome. They also ...
www.nature.com
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Reposted
orpsf.bsky.social
Olga Rosspopoff, PhD @orpsf.bsky.social · Jun 25
🚨 Check out the latest from @trono-lab.bsky.social showing how evolutionarily young transcription factors contribute to human cell cycle regulation!
Brilliant work led by Romain Forey and Cyril Pulver, now published in Cell Genomics. Check it out !
www.cell.com/cell-genomic...
Evolutionarily recent transcription factors partake in human cell cycle regulation
Pulver and Forey et al. generated a novel atlas reporting (1) gene expression over the cell cycle and (2) how systematic gene depletion affects cell cycle progression. They thereby identified evolutio...
www.cell.com
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Reposted
axelvisel.bsky.social
Axel Visel @axelvisel.bsky.social · Jun 18
Textbooks: “Enhancers are just a bunch of TFBSs”

But how do they REALLY work?

New paper with many contributors here @berkeleylab.lbl.gov, @anshulkundaje.bsky.social, @anusri.bsky.social

A 🧵 (1/n)

Free access link: rdcu.be/erD22
A meme-style comic panel with three parts. Left: A stylized enhancer with a mutation, surrounded by colored blocks representing functional motifs, a neural network diagram, chromatin accessibility signal traces, and a sequence motif. Two cartoon mouse embryos below show different LacZ reporter activity patterns. Top right: A hand hovers anxiously between two red buttons labeled “Experiments” and “AI,” with the caption “HOW DO ENHANCERS REALLY WORK?” Bottom right: A sweating superhero wipes his forehead, looking stressed about the difficult choice.
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Reposted
danielibrahim.bsky.social
Daniel Ibrahim @danielibrahim.bsky.social · May 27
How to find Evolutionary Conserved Enhancers in 2025? 🐣-🐭
Check out our paper - fresh off the press!!!
We find widespread functional conservation of enhancers in absence of sequence homology
Including: a bioinformatic tool to map sequence-diverged enhancers!
rdcu.be/enVDN
github.com/tobiaszehnde...
Conservation of regulatory elements with highly diverged sequences across large evolutionary distances
Nature Genetics - Combining functional genomic data from mouse and chicken with a synteny-based strategy identifies positionally conserved cis-regulatory elements in the absence of direct sequence...
rdcu.be
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Reposted
1995dana.bsky.social
Danica Milovanović @1995dana.bsky.social · May 19
New preprint of @trono-lab.bsky.social and my PhD work!
By modulating SWI/SNF remodeling at ancient transposable elements - LINE/L2s and SINE/MIRs, a "noncanonical" KZFP called ZNF436 protects cardiomyocytes from losing their identity.
🫀heartbeat on 🔁 repeat
www.biorxiv.org/content/10.1... #TEsky
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