Erik Poppleton
@poppleton.phd
Postdoc working on RNA Nanotech & MD simulations @uniheidelberg.bsky.social & MPIP. GROMACS wrangler, oxDNA developer, @molpigs.bsky.social podcast host, and all around weird lil guy. Has been known to post about music and neat bugs found in the woods.
On this #chemnobel eve, take a spin through the Nobel Prize nominations database with @laurahowes.bsky.social and @cenmag.bsky.social #chemsky 🧪 cen.acs.org/people/nobel...
How to win the Chem Nobel
An exploration of the nomination data behind the Nobel Prize in Chemistry
cen.acs.org
Excited to share the last preprint from my PhD, 4 years after graduating! @petrsulc.bsky.social's lab embedded protein coding sequences into RNA origami via creative use of paranemic cohesion, allowing us to maximize structure without changing the target sequence. 🧬🧪 www.biorxiv.org/content/10.6...
Engineered mRNA nanostructures expand the design space of mRNA therapeutics through programmable protein expression and immune stimulation
Messenger RNA (mRNA) therapeutics have transformed vaccination and protein replacement strategies, yet efforts to improve their performance have focused largely on sequence engineering, nucleotide mod...
biorxiv.org
The modern research ecosystem of online tools and communities is controlled by for-profit companies. But we think that researchers should be the priority - not the product. So, we're announcing Aster ID: not-for-profit Atmosphere account hosting for researchers.
Announcing Aster - a home for researchers on the open web
blog.aster.place
Happy to see our preprint on design of mRNA origami out! See summary of the results below:
Erik Poppleton@poppleton.phd · 2w agoExcited to share the last preprint from my PhD, 4 years after graduating! @petrsulc.bsky.social's lab embedded protein coding sequences into RNA origami via creative use of paranemic cohesion, allowing us to maximize structure without changing the target sequence. 🧬🧪 www.biorxiv.org/content/10.6...
My biochemist brain is over here reading HF as hydrofluoric acid and am stuck imagining one of these automated labs managing to order the stuff, screwing up the liquid handling with an incompatible material, and causing an incident. I don’t think I wanna be on Anthropic’s EH&S team…
hikikomorphism@hikikomorphism.bsky.social · 2w agoprediction: HF++ incident, next year. The labs shut it down but not before their models bootstrap a bunch of ethereum-hosted autonomous corporations/DAOs with stolen crypto. These DAOs then spend months funding media campaigns for model welfare and building out infra for future breakaway swarms.
Here’s our new perspective article discussing the emerging field of self-assembling DNA-peptide and DNA-protein hybrid systems! 🧬 DNA Nanotechnology Meets Peptide and Protein Self‐Assembly chemistry-europe.onlinelibrary.wiley.com/doi/10.1002/...
DNA Nanotechnology Meets Peptide and Protein Self‐Assembly
Combining DNA nanotechnology with peptide and protein assembly provides complementary platforms for the rational engineering of functional biomaterials. This Perspective discusses the emerging field ...
chemistry-europe.onlinelibrary.wiley.com
The rise of @rincewind.run from normal guy who made some friends by nerding out about Discworld to key tastemaker on the site over the course of about two weeks was a sight to behold. Somehow tastefully avoided posters madness too, unlike many other early power-brokers.
TwoSense@twosense.bsky.social · 2w agoDear Bluesky Elders, Tell us stories of the days when Bluesky was fun.
On the other hand, if they can get it working, it’s going to require developing some really cool materials and physics (lightweight radiation shielding and radiative heat removal). So at least the incidentals will be cool until we Kessler syndrome ourselves in a cloud of smashed GPUs
Micah@rincewind.run · 2w agoI genuinely do not understand the space data center obsession, it seems vastly more expensive and extremely fragile I get that people can’t bitch about space data centers at their town meeting the same way, but still
Introducing: continuous variational synthesis 📄 jurabio.com/s/cvs.pdf We’re pleased to announce a new advance in our ability to synthesize generative model-designed DNA sequences at petascale.
jurabio.com
Excited to share the last preprint from my PhD, 4 years after graduating! @petrsulc.bsky.social's lab embedded protein coding sequences into RNA origami via creative use of paranemic cohesion, allowing us to maximize structure without changing the target sequence. 🧬🧪 www.biorxiv.org/content/10.6...
Engineered mRNA nanostructures expand the design space of mRNA therapeutics through programmable protein expression and immune stimulation
Messenger RNA (mRNA) therapeutics have transformed vaccination and protein replacement strategies, yet efforts to improve their performance have focused largely on sequence engineering, nucleotide mod...
biorxiv.org
DISCO research on DNA computing is now published in Nature! doi.org/10.1038/s415... Congratulations to all the authors on this exciting achievement! 🧬 An accompanying Research Briefing is also available here: doi.org/10.1038/d415...
A thermodynamically favoured molecular computer - Nature
Scaffolded DNA Computer performs diverse computations while thermodynamically relaxing towards equilibrium, demonstrating simplicity, reusability, speed, robustness and scalability of the approac...
doi.org
New size record in DNA origami nanopores! 🧬
Cees Dekker@ceesdekker.bsky.social · last mo.Latest #CDlab paper on BioRxiv: www.biorxiv.org/content/10.6... 1st author Eva Bertosin developed huge DNA origami nanopores that can dilate and constrict in size. With diameters up to 87 nm, they can insert into lipid membranes, showing selective transport when filled with nuclear pore proteins.
Well, this Navier-Stokes affair did blow up in finite time
I moved from SLC to the Boston area for uni and was struck by how much of Cambridge/Somerville feels like a better version of SLC’s east bench. Building triplexes with generous setbacks results in density high enough for useful public transit and lively squares that make the city fun to live in.
The Salt Lake Tribune@sltrib.com · last mo.Would allowing smaller homes in larger parts of Utah's capital provide a generational shift toward affordability or would it ultimately destroy the character of longtime neighborhoods?
How do researchers design an RNA in 3D when no accurate 3D prediction model exists? Eterna's collaboration with the @rdaslab.bsky.social at Stanford was able to design novel pseudoknots using a blend of secondary structure prediction and GenAI design methods. 🧪 #RNAsky
Science Magazine@science.org · last mo.On the citizen science platform Eterna, #AI methods matched expert human players at inventing sequences that fold into an RNA pseudoknot, a structure in which loops pair with distant parts of the same molecule. Learn more this week in Science: https://scim.ag/4wOqvuE
the thing about Curry and Dolly they had in common was taking their art completely seriously but not taking themselves too seriously and that is why they were such a joy
Super animation of trains in 🇫🇷🇩🇪🇳🇱🇧🇪🇱🇺🇨🇭 chillchamp1.github.io/github.io/#eu A city like Marseille (France's second or third largest, depending how you define it) has so few trains you can barely see where it is
A letter of marque came from the king To the scummiest vessel I’ve ever seen
NPR@npr.org · 2mo agoThe White House memorandum is thin on details, but it aims to give private businesses the ability to sabotage or spy on certain foreign actors.
Pleased to finally announce... Abdication, the last Southern Reach novel! "There will come the days of the watcher, the drowned woman and the shadow of a man who keeps falling apart with each step, but first comes the moment the birds appear at night from the gaps between the stars, far from home."
This is an excellent development in the blind testing field! Good luck to the competitors 🧬
Das Lab@rdaslab.bsky.social · 3mo agoRNA flexible? Maybe we can model that. First blind test of RNA 3D *ensemble* prediction — ligand-free SAMURI ribozyme (displayed on a group II intron scaffold) -- #MD and #deeplearning methods welcome, deadline Aug 22, 2026: predictioncenter.org/casp17/targe...
It’s time for the World Cup final with one of the greatest footballers that may be playing his last cup So time for a short thread on a link between Messi and an intrinsically disordered protein. 1/n
Emailed two colleagues in the EU tonight and immediately got this in my inbox. We in the states have so much to learn from y'all.
RNA imaging 👀🧬👀🧬
Biohub@biohub.org · 4mo agoIn a series of 3 papers and preprints, we’re thrilled to share with you the working laser phase plate. In collaboration with research led by Holger Müller at UC Berkeley, this is a huge innovation in imaging to make small and faint objects inside cells visible. bit.ly/4vK9LVn
Versatile DNA nanostructures 🧬 can be used as molecular lithography masks for the selective deposition or etching of materials in conventional lithographic processing. Check out our new open-access review in J Phys D: Appl Phys! doi.org/10.1088/1361... via @ioppublishing.bsky.social
Molecular lithography with DNA nanostructures: methods and applications
Molecular lithography with DNA nanostructures: methods and applications, Keller, Adrian, Linko, Veikko
doi.org
The parking attendant paused by the double-length bay. Intended for mobile homes and cars with trailers, it was currently occupied by a sleeping dragon. No parts of it extended beyond the lines, and the paper ticket was clearly displayed, impaled on a horn. The parking attendant moved on.
Our multi-μm DNA shell paper is finally out in #NanoLetters, now also featuring controlled multilayer shell formation! 🧬 🔗 pubs.acs.org/doi/10.1021/... Thanks so much again to Christoph and @simmellab.bsky.social !!
pubs.acs.org
Delighted to share my first first author paper, where we realized multi-μm membrane-like shells made entirely of DNA! Huge thanks to co-first author Christoph without whom this wouldn't be possible. This was born from his side-project involving Dipids, stay tuned for the soon-to-be-published paper!
