Paulo C. T. Souza
@pauloctsouza.bsky.social
350 followers 110 following 23 posts
Martini developer trying to make CG models more useful for molecular design and drug/vaccine delivery 🖥️+🍸=💊💉 | Group leader at CBPsmn/ENS de Lyon | CNRS Researcher at DAMM team of LBMC/ENS de Lyon | Scientific consultant
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pauloctsouza.bsky.social
Looking forward to #acsfall2025! Hoping to finally meet in person the colleagues I’ve long admired at the
@acscomp.bsky.social reception Sunday as well. 😄🍸
pauloctsouza.bsky.social
Thanks to sponsors: Google Cloud & MolCube!

📄 Full program: acs.digitellinc.com/live/35/page...

#ACSFall2025 #ComputationalChemistry #CoarseGrainedModeling
ACS Fall 2025
acs.digitellinc.com
pauloctsouza.bsky.social
🔬 Coarse-Grained Modeling @ ACS Fall 2025 — Program Out Now! 🚀

📍 Washington DC | Aug 17–21

- Wed, Aug 20 AM: LNPs — nucleic acid delivery → viral entry simulations
- Wed, Aug 20 PM: Proteins & multiscale modeling
- Thu, Aug 21 AM: Methods & industry
pauloctsouza.bsky.social
🚀 New preprint out!

"Fast Parameterization of #Martini3 Models for Fragments and Small Molecules" is now on #bioRxiv

👉 doi.org/10.1101/2025...

#AutoMartiniM3 – tool for automated #CG modeling. With @matthchavent.bsky.social, @tbereau.bsky.social and others.

#CoarseGraining #MD #DrugDiscovery
Reposted by Paulo C. T. Souza
matthchavent.bsky.social
Very happy to release AutoMartiniM3 for Martini3 to automatize CG modelling of small molecules and fragments.

Great work from M Szczuka in my lab in collab with @pauloctsouza.bsky.social and @tbereau.bsky.social teams!

Give it a try: github.com/Martini-Forc...

poke @cg-martini.bsky.social
Reposted by Paulo C. T. Souza
Reposted by Paulo C. T. Souza
bioinfoadv.bsky.social
🔬Just published in Bioinformatics Advances: "Challenges in predicting PROTAC-mediated protein-protein interfaces with AlphaFold reveal a general limitation on small interfaces": https://doi.org/10.1093/bioadv/vbaf056

#ProteinDesign #AlphaFold #StructuralBiology

@pauloctsouza.bsky.social
doi.org
pauloctsouza.bsky.social
🤝 Join Our Sponsors! We already have great support but welcome more! Interested in sponsoring our ACS Fall 2025 symposium on Coarse-Grained Modeling? Contact us:

📩 Jianing Li: [email protected]
📩 John Shelley: [email protected]
📩 Paulo Souza: [email protected]
pauloctsouza.bsky.social
📢 Call for Speakers! Want to present at ACS Fall 2025 in Washington, DC (Aug 17-21)? Submit an abstract for our Coarse-Grained Modeling symposium!

www.acs.org/events/fall....

#ACSFall2025 #CG #MolecularDesign #FormulationDesign
ACS Fall - American Chemical Society
Join us at ACS Fall 2025 in Washington, DC or online, August 17-21. Choose from thousands of presentations, network, attend courses and visit the expo.
www.acs.org
pauloctsouza.bsky.social
🎉 Big news! 🎉 Together with Jianing Li (Purdue Univ.) & John Shelley (@schrodingerinc.bsky.social), I’m organizing a symposium on #CG #Modeling for Molecular & Formulation Design at ACS Fall 2025 (Aug 17-21, Washington, DC)! 🔬✨ For my part, I am grateful for the support of @ensdelyon.bsky.social!
pauloctsouza.bsky.social
From my side, thanks for the support of #LBMC (
@lbmcinlyon.bsky.social), #CBPsmn (Centre Blaise Pascal de Simulation et de Modélisation Numérique), #ENSdeLyon (École normale supérieure de Lyon), CNRS (@cnrs.bsky.social), CNRS Délégation Rhône Auvergne and CNRS Biologie (@cnrsbiologie.bsky.social).
pauloctsouza.bsky.social
Whether you're new to #ComputationalModeling or an expert, this review explores how #MolecularDynamics & #machinelearning advance #API encapsulation, transport, and release—bridging experimental & computational research for better #DrugDelivery.
pauloctsouza.bsky.social
After some work, we’ve now made the #GitHub for our #Martini3 #LNP models and protocols publicly available: github.com/Martini-Forc...

We also have a new #ChemRxiv with some minor updates: chemrxiv.org/engage/chemr...

#LipidNanoparticles #MolecularDynamics #DrugDelivery #mRNA #Simulation
pauloctsouza.bsky.social
From my side, thanks for the support of #LBMC (@lbmcinlyon.bsky.social), #CBPsmn (Centre Blaise Pascal de Simulation et de Modélisation Numérique), #ENSdeLyon (École normale supérieure de Lyon), CNRS (@cnrs.bsky.social), CNRS Délégation Rhône Auvergne and CNRS Biologie (@cnrsbiologie.bsky.social).
pauloctsouza.bsky.social
Highlight 4) Enhanced Phase Behavior: Refined models address previous limitations, capturing phase transitions with greater accuracy.
pauloctsouza.bsky.social
Highlight 3) Martini Lipid Benchmark: We introduce a benchmarking dataset for lipid properties, a valuable target for all lipid force fields.
pauloctsouza.bsky.social
Highlight 2) Comprehensive Lipid Library: Thousands of lipid models, spanning numerous lipid classes, open up exciting possibilities for studying biologically relevant systems.
pauloctsouza.bsky.social
Highlight 1) Improved Structural Resolution: A refined mapping scheme allows distinction between lipid tails differing by just two carbon atoms, boosting both structural and thermodynamic accuracy.
pauloctsouza.bsky.social
The #Martini3 #Lipidome represents a significant leap forward in molecular simulation of lipids, providing unprecedented structural resolution for Martini lipid models, refinements on bonded terms, an expanded lipid library, and enhanced phase behavior accuracy.