Ilya Flyamer

📢 Last days to apply for our #PhD and #MDPhD programs! Become part of Basel, Europe’s #LifeScience hub, and grow in a dynamic, international, and supportive community. Apply by Nov 15: www.fmi.ch/education-ca...

📣 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/...

Last chance to become a mentor in Sci.STEP, the call is about to close!

Congrats Wendy and team! Great news!

We are looking for mentors for the Sci.STEPS program! Please apply if you want to help your junior colleagues around the globe navigate their career path in any science related field.

Hi Marc, "minutes" is correct :) The CTCF and cohesin mediated loops, at least measured in those studies, are very stable

If you are curious about how cohesin regulates chromosome contact dynamics and its role in enhancer-promoter communication, check out our latest work. It’s been really fun to work with @nesslfy.bsky.social and @lucagiorgetti.bsky.social. Hope you enjoy reading it!

Really excited to share our latest work led by @mattiaubertini.bsky.social and @nesslfy.bsky.social: we report that cohesin loop extrusion creates rare but long-lived encounters between genomic sequences which underlie efficient enhancer-promoter communication.
www.biorxiv.org/content/10.1...
A🧵👇

Congrats, Charlene, amazing news!

NIPBL dosage shapes genome folding by tuning the rate of cohesin loop extrusion Cohesin loop extrusion is a major driver of chromosome folding, but how its dynamics are controlled to shape the genome remains elusive. Here we disentangle the contributions of the cohesin cofactors ...

New preprint with @gfudenberg.bsky.social

We find the rate of cohesin loop extrusion in cells is set by NIPBL dosage and tunes many aspects of chromosome folding.

This provides a molecular basis for NIPBL haploinsufficiency in humans. 🧵👇

www.biorxiv.org/content/10.1...

Joint decomposition of Hi-C maps reveals salient features of genome architecture across tissues and development The spatial organization of chromosomes in the nucleus is fundamental to cellular processes. Contact frequency maps from Hi-C and related chromosome conformation capture assays are increasingly availa...

We're excited to share our new preprint, "Joint decomposition of Hi-C maps reveals salient features of genome architecture across tissues and development", led by Thomas Reimonn. www.biorxiv.org/content/10.1...

Very excited to share the first preprint of the lab! We show that the nuclear pore protein TPR forms biomolecular condensates which keep heterochromatin away from the nuclear pore complexes and maintains global chromatin organization. Check it out, share it, tell us what you think!!

You have to add it just 1 cell cycle before fixing the cells.

We found a new asymmetry in the large-scale chromosome structure: sister chromatids are systematically shifted by hundreds of kb in the 5′→3′ direction of their inherited strands! The work was led by Flavia Corsi, in close collaboration with the Daniel Gerlich lab.
www.biorxiv.org/content/10.1...
1/

following this week's JC - this latest preprint from Giorgetti lab is *extremely* intriguing! TLDR: enhancers wake up promoters from their rare-bursting sleep and put them into a frequent-bursting state. The timescale is surprising - an Enh 150kb away activates the gene once a day!!

H2AK119ub Safeguards Against Ectopic Transcription Factor Mediated Gene Activation in the Developing Forebrain The PRC1 complex regulates developmental gene expression in mammals by ubiquitinating histones (H2AK119ub) and nucleating repressive chromatin interactions. Human genetic data and functional experimen...

Excited to share our hot-off-the-press @biorxivpreprint.bsky.social
that explores how PRC1-mediated H2AK119ub deposition safeguards lineage fidelity during forebrain development. Fantastic work by @lucyadoyle.bsky.social and our colleagues & collaborators. 🥳🧬🧠🔬
www.biorxiv.org/content/10.1...

Calling all aspiring Postdocs! One extra week to apply to join our exciting HFSP-funded project to uncover how chromatin moves to function.

Deadline July 15th.

www.mdc-berlin.de/career/jobs/...

I'm proud to announce the latest release of 🧬 #Oxbow 🏹, with new features to make NGS data analysis more powerful, efficient, and "composable".

Learn more at: oxbow.readthedocs.io

Isn't reviewing the work of personal friends a conflict of interest? I would decline such invitations...

We are looking for a research assistant to join our lab and support ongoing projects with genome engineering in mouse embryonic stem cells! Please get in touch if you are interested.
www.fmi.ch/education-ca...

Wissenschaftliche*r Mitarbeiter*in/ Postdoc (m/f/d) Chromatin ist nicht unbeweglich. Es handelt sich um ein hochdynamisches Material, dessen 3D-Struktur zentrale genomische Prozesse – von der Transkription bis zur DNA-Reparatur – steuert. Doch wie verhält sich Chromatin als Material – als Flüssigkeit, Feststoff oder viskoelastisches Gel –, um diese Funktionen in lebenden Zellen auszuführen? Ohne eine Antwort auf diese Frage können wir nicht vollständig verstehen, wie Chromatin bei Krankheiten gestört wird.

Postdoc🚨!

Come join our HFSP team to uncover how chromatin moves in cells and what this means for genome function! Great opportunity to combine single-cell genomics, live imaging and polymer physics in the unique mammalian retina with @andersshansen.bsky.social, Davide Michieletto & Sandra Tenreiro

Discovery Postdoctoral Fellow in Cancer Functional Genomics About the roleWe are thrilled to open applications for our Discovery Fellowship track of the Novartis Postdoctoral Fellowship Program.Come join Novartis Biomedical Research as a Discovery Postdoctoral...

We're hiring a postdoc!

Come join my lab @Novartis Oncology in Basel 🇨🇭, and employ genome engineering and functional genomics approaches to study how oncogenic Transcription Factors function at the molecular level (and how to drug them)

3+1 years! Apply!
Please RP

www.novartis.com/careers/care...

Great to see this published @genesdev.bsky.social. Evidence that enhancers can activate a bystander gene in an adjacent TAD, and that cohesin facilitates this. @uoe-igc.bsky.social.
pubmed.ncbi.nlm.nih.gov/40436628/

It was a pleasure to have you here, Hannah! Thank you for visiting us and talking about your exciting research. Hope to see you at conferences etc again soon! Sending best regards to everyone at the HGU and IGC @uoe-igc.bsky.social 👋

Fully Funded PhD Studentship in Human Genetics, Genomics and Disease: Dissecting DNMT3B functions in Immunodeficiency-centromeric instability facial anomalies syndrome at University of Edinburgh on Fi... PhD Project - Fully Funded PhD Studentship in Human Genetics, Genomics and Disease: Dissecting DNMT3B functions in Immunodeficiency-centromeric instability facial anomalies syndrome at University of E...

Want to work with us on DNA methylation and rare genetic disease? Fully funded PhD project with deadline 16th May:
www.findaphd.com/phds/project...
Excited to collaborate with @hannahlong.bsky.social and Daria Bunina (@uoe-igc.bsky.social/@mdc-berlin.bsky.social).
Please share 🙏
#epigenetics

📣 A reminder about an open postdoctoral position in our group!

🧫 Are you interested in mechanisms of gene regulation, human facial development and disease? How our DNA shapes the way we look? Do you love chromatin and enhancers? 🧬

If so, reach out for an informal chat! 💬

longlab.co.uk

Celebrating 10 years of our lab with a new preprint:
www.biorxiv.org/content/10.1...
How does enhancer location within a TAD control transcriptional bursts from a cognate promoter?
Experiments by Jana Tünnermann and modelling by Gregory Roth

It's actually also on Netflix now! Amazing show.

📣 We are advertising for a postdoc to join our team at the University of Edinburgh! Our lab studies gene regulatory mechanisms in development, and how genetic changes may impact these processes to alter development and shape human craniofacial form and function 🧬🧪

I think they stopped and then restarted at some point... Remember someone telling me when I started my PhD in 2015 that they had just restarted organizing them.