Agnes Noy

Congrats to Jamie et al! Our latest @york.ac.uk work dissecting the structural landscape of the Rep Helicase is now out in Nucleic Acids Research! 🧬🔬
@timcraggs.bsky.social @agnesnoy.bsky.social @bpsiyork.bsky.social @dr-mahmoud.bsky.social @single-mole.bsky.social
👇
tinyurl.com/bdznxur3

Archaeal cells whose DNA has been stained with a blue dye. Zoomed-in images of mutant cells that display chromosome segregation defects.

High-resolution images of DNA-protein complexes obtained with atomic force microscopy. Upon binding, the protein bridges distant sites, forming loops.

📢 Interested in #chromosomes 🧬 & #archaea thriving at the edge of life? PhD project in York,UK on how archaea pass on their genome to daughter cells.Friendly supervisors: me, @steve-quinn-lab.bsky.social & @georgerheath.bsky.social

www.findaphd.com/phds/project...
📅 January 7, 2026
Please RP🙏thx!

MRC DiMeN Doctoral Training Partnership: Computational Drug Discovery Targeting DNA Gyrase to Tackle Antimicrobial Resistance at University of York on FindAPhD.com PhD Project - MRC DiMeN Doctoral Training Partnership: Computational Drug Discovery Targeting DNA Gyrase to Tackle Antimicrobial Resistance at University of York, listed on FindAPhD.com

Would you like to fight against antimicrobial resistance (AMR) developing antibiotics? Apply to the PhD opportunity below and come to York. Collaboration with colegroupncl.bsky.social, @dghilarov.bsky.social and Inspiralis Ltd.
Fully funded via DiMeN DTP 💡
www.findaphd.com/phds/project...

💠 Positive charges = blue
🔴 Negative charges = red
🧬 DNA is negatively charged, so watch how the protein interacts!

Check our latest publication in #JACSAu @ACSPublications with Elliot Chan and @bpsiyork.bsky.social, where we describe how the bacterial protein HU binds DNA at atomic resolution. Thanks to EPSRC for funds and @n8cir.bsky.social and hecbiosim for computational resources. pubs.acs.org/doi/10.1021/...

#BioPhyChrom25 gala dinner at the 14th century #Hospitium venue in York, and @agnesnoy.bsky.social talk. Lots of discussion and ideas for BioPhyChrom2027… Great vibes and atmosphere!
@biophychrom.bsky.social @damelab.bsky.social @vslioy.bsky.social @graingerlab.bsky.social @biochemsoc.bsky.social 🧬

Our community letter on #FAIR principles in #moleculardynamics simulations has been published on @naturemethods.bsky.social 🎉

This is one of the conferences where I have genuinely learned more. Delighted to contribute to this vision article.

Were you interested in our last paper published in Phys. Rev. Lett. (with Matthew Burman at the University of York) but found it too hard to follow? Then, look at the piece from @sciencex.bsky.social where it is explained in more plain terms with the help of Ingrid Fadelli

And finally, we described melting bubbles in highly overtwisted DNA, once again in agreement with biochemical assays from Zechiedrich's lab (6/6)

We also describe the dynamics and diffusion of supercoils. Big end-to-end fluctuations are caused by supercoil reorganization as described by
Lipfert and @ecarlon.bsky.social labs (5/6)

This state converges to tip-bubbles as tension increases in agreement with previous oxDNA simulations from Doye and Louis labs 👇 (again, bubbles in red) (4/6)

We find a new state in negative supercoiling and minimal tension where bubbles form in AT-rich regions irrespective of the underlying DNA topology. They were already detected by Zechiedrich's lab using biochemical assays (bubbles in red) 👇 (3/6)

We provide the conformational phase diagram. We map the regime where bubbles and supercoils are excluded from each other in moderate levels of supercoiling. We name it 'elastic' because it was deduced by rod elastic models (2/6)

Our last paper just appeared in Physical Review Letters. We studied how linear DNA is distorted by torsion and tension using all-atom simulations. Excellent work from Matthew Burman's EPSRC-funded PhD. Thanks to N8 CIR and HecBiosim for computational resources
doi.org/10.1103/Phys...
See thread 👇

But still is very good! Well done! I have never won any running prize, apart from being in the top ten from the last... 🙃

I am very excited that I will participate in this workshop!

Registration is now open for The Biology and Physics of Prokaryotic Chromosomes meeting in York, UK. 16-19 September 2025