The famed Stanford Smallville is officially open-source! 25 AI agents inhabit a digital Westworld, unaware that they are living in a simulation. They go to work, gossip, organize socials, make new friends, and even fall in love. Each has unique personality and backstory.

Do you work with 🧬DNA-PAINT or DNA-STED? 👉🏻We made DNA labels that are twice as bright and show lower background. How? Self-quenching of two fluorophores. Out now in Angewandte Chemie doi.org/10.1002/anie.2… Fantastic work by a great team 🙏 (details 👇🏻)

Check out our minimalist but versatile DNA nanotubes using just four DNA sequences. With custom geometry, chirality and length, they are great for nanopatterning and drug delivery. And they self-correct errors under dissipative conditions! Congrats Xin Luo, Dani Saliba, collabs!

A _very initial_ version of MolecularNodes is now installable via pip. Checkout the examples linked for how you can do molecular rendering Blender and Molecular Nodes, all within your own jupyter notebooks!

A very nice showcase of DNA nanotech by Pallav and the team. Currently trending on YouTube, with 3.9 million views. And features oxView.org view of the oxDNA and oxRNA design

#SATassembly method applied to design of shape shifting materials: 3D folding shells that switch conformations with temperature: arxiv.org/abs/2310.03537

Amazing work led by Hao Liu and the ASU Lab of Petr Šulc.

Our collaboration with Famulok lab and Nils Walter Lab is finally out in Nature Nanotechnology : A T7-polymerase powered DNA "nanoengine": a chemically powered oscillatory motion at nanoscale: nature.com/articles/s4156…

A DNA engine?! Petr Šulc @lrovigatti Michael Matthies SynBioBeta DNA Goes Full Throttle: The Smallest Engine You've Never Seen: bit.ly/46IrVdS

zoombya.github.io/oxJenga/ Trigger button allows rotation, squeezing the sides allows loading up the next structure. Playing with Three.js and WebXR. Webpage provides a VR view of some of the designs which were provided by the NA research community to nanobase.org

Future of #DNAnanotech design is in AR rather than VR. You do not want to trip over your colleague while you are viewing your latest oxDNA and oxRNA simulation in 3D. New AR setup for oxview.org, using Meta Quest , is currently under development by Michael Matthies , stay tuned

We introduce a new model #oxNA: it includes oxDNA and oxRNA and #oxRNA and supports creation of DNA-RNA hybrids. It reproduces basic structural, mechanical and thermodynamic properties of DNA-RNA hybrid duplexes: arxiv.org/abs/2311.07709 We show its applications to the following🧵1/3:

Real-Time Structural Biology of DNA and DNA-Protein Complexes on an Optical Microscope biorxiv.org/cgi/content/sh… #biorxiv_biophys

Interactive #DNAnanotech design&simulation: With an AR headset from Meta Quest and oxDNA and oxRNA , our new tool developed by J. Bohlin and Michael Matthies will allow you to interact and edit simulated structure in real-time. Or play tug of war with DNA origami and your lab colleagues.

Foresight Fellow Michael Matthies presented at Vision Weekend France: Explore the world of #DNAOrigami with the new interactive molecular dynamics simulation using the #oxDNA model. x.com/petr_sulc/stat… Michael Matthies

Come join us in Munich!

Our cryo-EM structure of an RNA polymerase ribozyme is now available in the databank with the PDB ID 8T2P: rcsb.org/3d-view/8T2P

Special thanks to Dan Girshovich for the Orb Demo, Michael Matthies for Meta Quest Molecules, and Nadoukká Divin for The Future of Communication. Our attendees enjoyed your innovative demos at Vision Weekend Europe. Get your tickets to Vision Weekend USA: foresight.org/vw2024us/

A new tutorial by our student Sarah on using oxDNA and oxRNA ecosystem to simulate DNA origami: arxiv.org/abs/2409.13206 No coding needed, just web browser and your starting design file (cadnano or oxdna file format). Article also accompanied by video tutorial: youtube.com/watch?v=5-rgMe…

.Petr Šulc, Michael Matthies et al. demonstrate how the presence of single- & double-stranded overhangs drive entropy-induced conformational changes in 2D #DNAOrigami #nanostructures. #oxDNA Biodesign Institute at Arizona State University Arizona State University TUM Department of Science, Technology & Society TU München Read: go.acs.org/bnw