fabienplisson.bsky.social - Profile | ThreadSky | a Reddit-style client for Bluesky

Think coronavirus spikes have run out of surprises? Think again. Our latest preprint dives into the highly unusual spikes of marine mammal coronaviruses. www.biorxiv.org/content/10.1... This #cryoEM study was led by @viralfusion.bsky.social, with key contributions from an amazing team.

submitted 27 days ago • 3 comments

Never too late to publish, I am proud to see this work finally published: Tagitinin C, a Sesquiterpene Lactone, and Derivatives as Proteasome Inhibitors doi.org/10.1002/ejoc...

submitted 45 days ago • 1 comment

Choosing ML architectures for protein engineering is often challenging. Our “new” updated preprint provides a rational framework to match ML models to protein fitness tasks, showing landscape ruggedness influences prediction accuracy. Mahakaran dana Adam et al www.biorxiv.org/content/10.1...

submitted 58 days ago • 0 comments

Run BioEmu in Colab - just click "Runtime → Run all"! Our notebook uses ColabFold to generate MSAs, BioEmu to predict trajectories, and Foldseek to cluster conformations. Thanks @jjimenezluna.bsky.social for the help! 🌐 colab.research.google.com/github/sokry... 📄 www.biorxiv.org/content/10.1...

submitted 82 days ago • 1 comment

Protein function often depends on protein dynamics. To design proteins that function like natural ones, how do we predict their dynamics? @hkws.bsky.social and I are thrilled to share the first big, experimental datasets on protein dynamics and our new model: Dyna-1! 🧵

submitted 91 days ago • 5 comments

You can download my protein structure-inspired artwork from pdb webpage: pdb101.rcsb.org/sci-art/bezs... @rcsbpdb.bsky.social @pdbeurope.bsky.social #sciart

submitted 96 days ago • 1 comment

YouTube is the world's 2nd-largest search engine. So why aren't more conference keynotes and presentations there? 🤔

submitted 120 days ago • 2 comments

Modern-Day Oracles or Bullshit Machines? Jevin West (@jevinwest.bsky.social) and I have spent the last eight months developing the course on large language models (LLMs) that we think every college freshman needs to take. thebullshitmachines.com

submitted 135 days ago • 162 comments

Short thread about this interesting preprint that explores antibody design by combining MD with inverse folding and active learning. It's a bit rough around the edges but it introduces a cool idea I hope is further fleshed out www.biorxiv.org/content/10.1...

submitted 122 days ago • 1 comment

Are protein language models the universal key? doi.org/10.1016/j.sb... Brilliant and thoughtful piece.

submitted 126 days ago • 0 comments

Brilliant video on the development of protein structure prediction featuring #AF2 and #Rosetta series youtu.be/P_fHJIYENdI?...

submitted 127 days ago • 0 comments

(1/4)In our new paper in @cp-trendsgenetics.bsky.social @cellpress.bsky.social, we highlight some fascinating tiny proteins—microproteins—which appear to be widespread in nature. www.cell.com/trends/genet...

submitted 134 days ago • 1 comment

Great editorial from @evotec.bsky.social using AI+ML tools to assist drug discovery campaigns in the small and middle chemical spaces pubs.acs.org/doi/10.1021/...

submitted 140 days ago • 0 comments

Closer to my experience in #CompBiology - the development of AI algorithms to discover and design antimicrobial peptides against #AMR, where predictive ML models are employed to predict the antimicrobial nature (classification) or activity (regression), primarily from sequences.

submitted 140 days ago • 1 comment

Drug discovery and biotechnology are multi-objective optimisation challenges. Machine learning models integrate well into an enzyme engineering pipeline to predict properties and functions. Parallelising these models allows multi-objective optimisation.

submitted 140 days ago • 1 comment

(1/5)Venoms are an underexplored treasure trove of bioactive molecules. Our latest research taps into these evolutionary powerhouses to find a new arsenal against drug-resistant bacteria. We introduce Venomics AI. www.biorxiv.org/content/10.1...

submitted 155 days ago • 1 comment

Many people talk about the "Golden Age of Antibiotics", but I hadn't seen it visualized properly. Just how many types of antibiotics were discovered during that time? So, I visualized it myself!

submitted 178 days ago • 24 comments

scMusketeers: Addressing imbalanced cell type annotation and batch effect reduction with a modular autoencoder [new]

submitted 183 days ago • 0 comments

What a stunning view #SydneyOpera #Xmas

submitted 184 days ago • 0 comments

This should go chiral

submitted 204 days ago • 7 comments

Applications are open for PhD places on the Engineering Biology CDT programme, beginning Sept 2025. The programme is run jointly by the Universities of Bristol and Oxford. Apply to Bristol (by 13 Jan 2025): bristol.ac.uk/study/postgr... Apply to Oxford (by 8 Jan 2025): ox.ac.uk/admissions/g...

submitted 216 days ago • 0 comments

Thanks to @sunnalab & @MQ_BDRC for inviting me to the symposium. I was very pleased to present our @CinvestavIra & @IngenieBio work in the #AI-driven peptide discovery & design. It stimulated some interesting questions over bias, representation learning, data scarcity and hype.

submitted 216 days ago • 0 comments

Looks like Bryan Dickinson isn’t here yet so I’m cross posting his challenge: “if you or someone you know thinks they can actually predict PPIs, prove it. Here is a link to our blinded protein sequence data” dickinsonlab.uchicago.edu/ppi-challenge

submitted 217 days ago • 3 comments

Similar challenges - data scarcity, #bias, noise - also limit #ML-guided #proteindesign. We need to generate new data through computational (e.g., de novo design) & experimental (e.g., SPPS, #syntheticbio) approaches are essential doi.org/10.1038/s435...

submitted 221 days ago • 0 comments

Happy to launch Iɴɢᴇɴɪᴇ Bɪᴏ, a consulting firm offering data-driven solutions for biomolecular discovery and design! We specialize in AI-driven molecular design, computational chemistry, and more. Let's collaborate! Visit ingeniebio.com #AI #ML #drugdiscovery

submitted 221 days ago • 1 comment