If you are in Paris next Friday, 11th of April, come join us for the one-day event on enhancers at Collège de France @collegedefrance.bsky.social. Check out the event poster below showcasing the fantastic speaker list.
We seek a bioinformatician to join our group at the College de France, Paris. If you like genomics, 3D genome organization, gene regulation, and development check out the offer and get in touch!
This is really horrible Patrick. I hope the situation improves soon and that you, your family, and lab members stay safe.
Congrats @alexandremayran.bsky.social, Isma and all the authors!
Happy to share our collaborative effort showing a temporal decoupling between morphogenesis and transcription during gastruloids self-organization
www.biorxiv.org/content/10.1...
Fair point. Maybe I'm biased due to my own background & people I've been surrounded by. Also, although I'm not successful by those metrics, so far, I had so many issues during my education/carrer (many due to my background) and I think I'm still here only due to sheer determination.
Really? Somehow I am not surprised by this at all. It is harder to succeed when you come from underprivileged background. Thus, either many change path early on (0 publication) but the ones that persist probably had to overcome lots of struggles = more likely to have higher impact.
What an amazing lab outing it was yesterday! Visiting both the public and non-public collections of National Museum of Natural History all rounded with the best guide.
Excited to share my new paper implicating the 3D genome in epigenetic inheritance. We show that chromatin contacts are able to trigger epimutation in Drosophila. I'm very thankful for the support of Giacomo Cavalli, @psarkies.bsky.social and to all others involved!
www.cell.com/molecular-ce...
Congratulations Max! So happy to see this work out!
This is what I experienced since I started doing science. I always felt I'm better at developing ideas/discussing novelties/troubleshooting when I have a friend/colleague (ideally in the same person) to bounce ideas off. I think we'd all benefit if academia starts encouraging the concept of co-PIs.
Join us in Banff for the Keystone Interplay of Chromatin Architecture and Transcriptional Regulation meeting next spring (joint with Epigenetics in Development and Disease): www.keystonesymposia.org/conferences/... Short talk abstract coming up - Jan 9
Was just looking for it and count not agree more!
We did try not to be super focused on mammals as we usually are. I hope the community finds it useful as well!
I understand and share your frustration. I am happy to send it to you. Feel free to email me at ivana.jerkovic@college-de-france.fr
We are advertising for a project looking at epigenetic inheritance in Drosophila at the Department of Biology, University of Oxford @oxfordbiology.bsky.social Please get in touch if you are interested! Only 1 month left to be considered for funding.
www.findaphd.com/phds/project...
Hello, can you please add me too! Thank you!
Ever wondered how bats develop wings from their hands? 🦇✨
Check out our new preprint and the thread below! 🤓
👏Big applause to our amazing first authors Magdalena Schindler and Christian Feregrino and thanks to all our co-authors for their help! 🥂
www.biorxiv.org/content/10.1...
Thank you for the comment and letting me know for the link. Here it is: www.biorxiv.org/content/10.1...
I would also like to thank other Cavalli lab members who aren't on the author list but were supportive with great scientific discussions and to me personally. It means more than one can express in a tweet @fpaldi.bsky.social, Nazli Akilli and Gonzalo Sabaris.
Finally, I would like to thank all the co-authors on this manuscript for all their help and support. Thank you immensely to Marco Di-Stefano, Michael, Hadrien, Davide, Giorgio, Fred, and Giacomo.
labeled with this mark already at the ESC stage it is likely that either an abundance of this mark is necessary for the attraction or more likely that NPC-specific TFs and their co-factors are needed to fuel the rewiring guided by the scaffolding element. 17/17
We found that only by combining loop extrusion, weak compartmental interactions, and site-specific loop attractions we could successfully simulate ESC->NPC rewiring. These site-specific interactions could be H3K27Ac-driven. However, given that both P and A are 16/17
indicating that while loop-extrusion halting at A seems to contribute to its scaffolding function, the loss of loop-extrusion contribution isn't enough to halt the rewiring.
Finally, we turned to biophysical modeling to better understand the underlying mechanism. 15/17
We then pondered about the mechanism of this process. Since A is the only putative CRE in this region occupied by the CTCF we deleted this CTCF motif (22bp). We found that while insulation at A is gone and A-anchored contacts weakened, A-unrelated contacts were unaffected 14/17
In addition, the surface area of the remaining triplets in delA is larger suggesting a general decompaction. Finally, we found that in delA, P & B are less constrained in space indicating that A constrains the chromatin with its frequent P-A loop thus facilitating rewiring. 13/17
To further investigate this, we did an oligopaint 3D fish with 10 kb probes at promoter (P), A, and B. We found that in wt NPCs P and A are frequently in contact. In delA all pairwise contacts (P-A, A-B, P-B) and triplets (P-A-B together) are less frequent than in wt. 12/17
This finding suggested that A either makes a hub with other CREs/promoter holding them together or that it somehow acts as a scaffold by preferentially contacting one other anchor thus bringing into proximity other elements and facilitating their contacts. 11/17
While neither delA or delB had an overall significant effect on Zfp608 transcription they both affected local 3D chromatin, but quite differently. delB caused the loss of B-anchored contacts whereas delA caused the loss/weakening of all contacts in the region. 10/17
