@olimpiabompadre.bsky.social
Postdoc in the Trono lab@EPFL - interested in all things noncoding and genome regulation
Reposted
Key points on the need for continued animal use in scientific research. www.theguardian.com/science/2025...
Why we have to continue with animal testing for medical research | Letters
Letters: Dr Robin Lovell-Badge and Prof Emma Robinson respond to an editorial on using new technologies to reduce the reliance on animal experiments
www.theguardian.com
December 1, 2025 at 10:15 PM
Key points on the need for continued animal use in scientific research. www.theguardian.com/science/2025...
Reposted
Happy to present the final version of our Cadherin and gastruloid manuscript, online at @cp-cellreports.bsky.social.
www.cell.com/cell-reports...
Initially in BiorXiv (www.biorxiv.org/content/10.1...) 1/12
www.cell.com/cell-reports...
Initially in BiorXiv (www.biorxiv.org/content/10.1...) 1/12
Cadherins modulate the self-organizing potential of pseudo-embryos
Gastruloids derived from ES cells mimic embryonic patterning through robust self-organization.
Mayran et al. uncover that this competence depends on a cadherin switch regulated
by Snai1-driven E-cadhe...
www.cell.com
November 17, 2025 at 10:37 AM
Happy to present the final version of our Cadherin and gastruloid manuscript, online at @cp-cellreports.bsky.social.
www.cell.com/cell-reports...
Initially in BiorXiv (www.biorxiv.org/content/10.1...) 1/12
www.cell.com/cell-reports...
Initially in BiorXiv (www.biorxiv.org/content/10.1...) 1/12
Reposted
📣 Paper alert!
I am delighted that our paper exploring the impact of Neanderthal-derived variants on the activity of a disease-associated craniofacial enhancer has been published in Development today!
journals.biologists.com/dev/article/...
I am delighted that our paper exploring the impact of Neanderthal-derived variants on the activity of a disease-associated craniofacial enhancer has been published in Development today!
journals.biologists.com/dev/article/...
November 10, 2025 at 11:11 AM
📣 Paper alert!
I am delighted that our paper exploring the impact of Neanderthal-derived variants on the activity of a disease-associated craniofacial enhancer has been published in Development today!
journals.biologists.com/dev/article/...
I am delighted that our paper exploring the impact of Neanderthal-derived variants on the activity of a disease-associated craniofacial enhancer has been published in Development today!
journals.biologists.com/dev/article/...
Reposted
🪰 folks! I spoke to the Transmitter about FlyBase. As noted at flybase.org, bridge $ ran out and many staff were laid off.
Good news is stopgap contributions will keep core FlyBase operations active. But community support remains essential. Please donate @FlyBase and share! 1/2
tinyurl.com/FlyBase
Good news is stopgap contributions will keep core FlyBase operations active. But community support remains essential. Please donate @FlyBase and share! 1/2
tinyurl.com/FlyBase
FlyBase secures funding for year, but future still uncertain
The FlyBase team’s fundraising efforts have proven successful in the short term, but restoration of its federal grant remains uncertain.
tinyurl.com
October 29, 2025 at 12:31 PM
🪰 folks! I spoke to the Transmitter about FlyBase. As noted at flybase.org, bridge $ ran out and many staff were laid off.
Good news is stopgap contributions will keep core FlyBase operations active. But community support remains essential. Please donate @FlyBase and share! 1/2
tinyurl.com/FlyBase
Good news is stopgap contributions will keep core FlyBase operations active. But community support remains essential. Please donate @FlyBase and share! 1/2
tinyurl.com/FlyBase
Reposted
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/...
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
September 1, 2025 at 7:10 AM
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/...
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/...
Reposted
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...
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
July 15, 2025 at 7:58 AM
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...
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...
Reposted
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
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
July 16, 2025 at 1:49 PM
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
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
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.
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
July 9, 2025 at 12:55 PM
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.
Reposted
🚨 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...
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
June 25, 2025 at 7:21 AM
🚨 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...
Brilliant work led by Romain Forey and Cyril Pulver, now published in Cell Genomics. Check it out !
www.cell.com/cell-genomic...
Reposted
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
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
June 18, 2025 at 5:56 PM
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
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
Reposted
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...
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
May 27, 2025 at 12:19 PM
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...
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...
Reposted
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
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
May 19, 2025 at 2:01 PM
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
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