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Ivana Jerkovic @ivana-jerkovic.bsky.social · Apr 3

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.

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Ivana Jerkovic @ivana-jerkovic.bsky.social · Jan 31

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!

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Ivana Jerkovic @ivana-jerkovic.bsky.social · Jan 10

This is really horrible Patrick. I hope the situation improves soon and that you, your family, and lab members stay safe.

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Ivana Jerkovic @ivana-jerkovic.bsky.social · Dec 24

Congrats @alexandremayran.bsky.social, Isma and all the authors!

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Reposted by Ivana Jerkovic

Alexandre Mayran @alexandremayran.bsky.social · Dec 24

Happy to share our collaborative effort showing a temporal decoupling between morphogenesis and transcription during gastruloids self-organization
www.biorxiv.org/content/10.1...

Size-dependent temporal decoupling of morphogenesis and transcriptional programs in gastruloids

Understanding the interplay between cell fate specification and morphogenetic changes remains a central challenge in developmental biology. Gastruloids, self-organizing stem cell-based models of post-...

www.biorxiv.org

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Ivana Jerkovic @ivana-jerkovic.bsky.social · Dec 23

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.

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Ivana Jerkovic @ivana-jerkovic.bsky.social · Dec 23

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.

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Ivana Jerkovic @ivana-jerkovic.bsky.social · Dec 12

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.

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Reposted by Ivana Jerkovic

Fitz-James Lab @fitz-james-lab.bsky.social · Dec 11

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...

Interchromosomal contacts between regulatory regions trigger stable transgenerational epigenetic inheritance in Drosophila

In some cases, non-genetic information can be inherited across generations. Fitz-James et al. investigate the mechanism by which such epigenetic information becomes heritable in fruit flies. They show that physical contact between regions of DNA within the cell is able to trigger the histone modification H3K27me3 to become heritable.

www.cell.com

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Ivana Jerkovic @ivana-jerkovic.bsky.social · Dec 11

Congratulations Max! So happy to see this work out!

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Ivana Jerkovic @ivana-jerkovic.bsky.social · Dec 8

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.

Itai Yanai @itaiyanai.bsky.social · Dec 8

The good idea comes when one person feels comfortable enough to say something that might make them look stupid and their friend is open enough to recognize its potential.

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Reposted by Ivana Jerkovic

Luca Giorgetti lab @FMI @lucagiorgetti.bsky.social · Dec 6

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

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Ivana Jerkovic @ivana-jerkovic.bsky.social · Dec 4

Was just looking for it and count not agree more!

Ivana Jerkovic @ivana-jerkovic.bsky.social · Dec 2

We did try not to be super focused on mammals as we usually are. I hope the community finds it useful as well!

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Ivana Jerkovic @ivana-jerkovic.bsky.social · Dec 2

I understand and share your frustration. I am happy to send it to you. Feel free to email me at [email protected]

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Reposted by Ivana Jerkovic

Fitz-James Lab @fitz-james-lab.bsky.social · Dec 2

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...

How is epigenetic information inherited across generations in insects? at University of Oxford on FindAPhD.com

PhD Project - How is epigenetic information inherited across generations in insects? at University of Oxford, listed on FindAPhD.com

www.findaphd.com

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Ivana Jerkovic @ivana-jerkovic.bsky.social · Dec 2

Hello, can you please add me too! Thank you!

Reposted by Ivana Jerkovic

Fany M. Real @fany-real.bsky.social · Dec 1

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...

Comparative single-cell analyses reveal evolutionary repurposing of a conserved gene program in bat wing development

Bats are the only mammals capable of self-powered flight, an evolutionary innovation based on the transformation of forelimbs into wings. The bat wing is characterized by an extreme elongation of the ...

www.biorxiv.org

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Ivana Jerkovic @ivana-jerkovic.bsky.social · Dec 1

Working bioRxiv link:
www.biorxiv.org/content/10.1...

A Scaffolding Element Rewires Local 3D Chromatin Architecture During Differentiation

Upon differentiation chromatin rewires to reflect its new cellular identity and function. While it is widely known that this process involves cooperative changes in transcription, chromatin compositio...

www.biorxiv.org

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Ivana Jerkovic @ivana-jerkovic.bsky.social · Dec 1

Thank you for the comment and letting me know for the link. Here it is: www.biorxiv.org/content/10.1...

A Scaffolding Element Rewires Local 3D Chromatin Architecture During Differentiation

Upon differentiation chromatin rewires to reflect its new cellular identity and function. While it is widely known that this process involves cooperative changes in transcription, chromatin compositio...

www.biorxiv.org

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Ivana Jerkovic @ivana-jerkovic.bsky.social · Dec 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.

Ivana Jerkovic @ivana-jerkovic.bsky.social · Dec 1

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.

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Ivana Jerkovic @ivana-jerkovic.bsky.social · Dec 1

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

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Ivana Jerkovic @ivana-jerkovic.bsky.social · Dec 1

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

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Ivana Jerkovic @ivana-jerkovic.bsky.social · Dec 1

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

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