Davide Mazza

How do dynamics of signalling molecules skew cell fate decisions? With this review we try to move our first steps in the signalling dynamics field, together with the expert lead of @samuzambrano.bsky.social! Kudos to Fulvio, Sara and Erika for their excellent work!

Slightly diminish a band:
They might be quite tall.

Minflux goes to chromatin! Very interesting preprint from @andersshansen.bsky.social lab, featuring co-first author @matteomazzocca.bsky.social, that keeps on making me very proud.

That's so great, Davide! Congratulations!

This looks sooo great! Congratulations @mirlab.bsky.social !!

Great to see you here, Tim!

Effective in vivo binding energy landscape illustrates kinetic stability of RBPJ-DNA binding - Nature Communications Transcription factor binding to DNA is vital for gene regulation. Here, the authors determine the kinetics of DNA binding for RBPJ in living cells. They find that the binding is kinetically rather tha...

Happy to share Duyen's and Philipp's work on effective binding energy landscape and affinity of RBPJ obtained in vivo by on- and off-rate measurements is now published. Great collaboration with labs of Franz Oswald and Tilman Borggrefe doi.org/10.1038/s414...

Fantastic Work Christof!

Thermodynamic principles link in vitro transcription factor affinities to single-molecule chromatin states in cells The molecular details governing transcription factor (TF) binding and the formation of accessible chromatin are not yet quantitatively understood - including how sequence context modulates affinity, h...

Preprint from Marklund and Greenleaf labs on TF binding: www.biorxiv.org/content/10.1...

In vitro single molecule imaging + In nuclei single molecule footprinting of KLF on engineeered sequences.

On-rates matter more than off-rates, similarly to what previously shown in baceria.

What is the multiscale structure of chromatin condensates? How does it shape thermodynamic and material properties?

We address this at near-atomistic resolution🔥🔥🔥 using cryoET (Rosen & Villa labs, led by H Zhou), a new multiscale model (K Russell) and cryoET-guided sims (J Huertas & J Maristany)

Thank you Laura, you are right! We should have cited that paper!

Chromatin conformation, gene transcription, and nucleosome remodeling as an emergent system Gene transcription is an emergent phenomenon of packing domain geometry in situ.

This looks very interesting! www.science.org/doi/full/10....

On my reading list!

Real-time visualization of reconstituted transcription reveals RNA polymerase II activation mechanisms at single promoters https://www.biorxiv.org/content/10.1101/2025.01.06.631569v1

Towards community-driven visual proteomics! Excited to finally share this large-scale curated & annotated dataset of 1829 high-quality #cryoET tomograms of the little green alga that just keeps giving— Chlamydomonas! 🧪🧶🧬🌾🌊🌍

Preprint📜: www.biorxiv.org/content/10.1...

A short thread🧵👇

Tasty, tasty phase separation. A much needed rigorous study!

Thank you Kazuhiro.Your work was a great inspiration for this! We hope to have reported it accurately.

Thanks Mark, all merit goes to Tom on this! He went through many iterations before having something that was somehow 'accurate' and yet readable.

Excited to share @domenicnarducci.bsky.social 's paper now out in Mol Cell published back-to-back with the paper from @dewitlab.bsky.social‬ - despite lots of prior work, we find that ZNF143 has no looping function
www.sciencedirect.com/science/arti...
www.sciencedirect.com/science/arti...

Thank you Lennart!

We often speak about chromatin as being accessible or inaccessible, but what does it mean? We wrote a short review on this, 🔬 focused:

sciencedirect.com/science/arti...

A big thank you to Tom Fillot for his efforts on this and to
@hansen_lab

@marcelonollmann
for their help as editors.

Thank you very much Carmelo! Happy to have joined this lively community!