Having a blast at #ismbeccb2025! Let's catch up if you're into AI for SynBio, bioLMs, phages, microbes, biosecurity. We're also always looking for PhD students/postdocs! Case in point: multiple 3yr postdoc positions. Work with us or other PIs at HPI near Berlin 🇪🇺! lnkd.in/eD-ueQmV lnkd.in/eASJEZAW

🧬 Passionate about #SyntheticBiology and eager to make an impact? There's still time to get involved and join us!✨ ⏳Application deadline extended until March 14th! 👇 Open positions & application info:

New paper (and #ICLR2025 Oral :)): ProtComposer: Compositional Protein Structure Generation with 3D Ellipsoids arxiv.org/abs/2503.05025 Condition on your 3D layout (of ellipsoids) to generate proteins like this or to get better designability/diversity/novelty tradeoffs. 1/6

Can generative AI write functional genomes? We don't know, because what's missing in this field is a thorough program of experimental testing. thisgenomiclife.substack.com/p/can-genera...

Want to push the frontier on AI for safe synthetic biology and infectious disease? Just extended the deadline for PhD/Postdoc positions: apply by March 3rd!

Check out our latest #phagetherapy review in Nature Reviews Methods Primers. rdcu.be/d9H92 Happy to share a conceptual schematic for a “phrinter (phage printer)” 😊 Many thanks to all co-authors, editors and reviewers!

[SAVE THE DATE] MLCB 2025 is happening Sept 10-11 at the NY Genome Center in NYC! Attend the premier conference at the intersection of ML & Bio, share your research and make lasting connections! Submission deadline: June 1 More details: mlcb.github.io Help spread the word—please RT! #MLCB2025

I'm setting up my lab at @hpi.bsky.social, on the edge of vibrant Berlin! PhD/postdoc positions in AI for safe synthetic biology & infectious diseases (AMR), in collab with @melanianowicka.bsky.social. Apply by Feb 24: email [email protected] with “[Open-25]” in the subject. DM for details!

A protein language model trained to predict subcellular localization for human proteins can generate de novo sequences with the desired localization and identify pathological mutations. @itamarchinn.bsky.social @pgmikhael.bsky.social www.science.org/doi/10.1126/...

It's long seemed that molecular biology is a natural home for ML interpretability research, given the maturity of human-constructed models of biological mechanisms—permitting direct comparison with their ML-derived counterparts—unlike vision and NLP. Our first foray below👇.

This might be the best paper on applying sparse autoencoders to protein language models. The authors identify how neural networks trained on amino acid sequences "discover" different features, some specific to individual protein families, other for substructures www.biorxiv.org/content/10.1...

Can LLM agents discover novel protein functions? Introducing Gaia Agent 🌎 🤖: an AI biologist capable of reasoning across genomic contexts to predict functions of proteins! Gaia Agent is now integrated with Gaia Search at gaia.tatta.bio

In which esteemed colleague Jeremy Berg discusses how his contributions to racemic protein synthesis, inspired by Pauling, demonstrated that D-proteins are immunologically invisible #mirrorbiology

Sharing here a new commentary in Science Policy Forum that provides new analysis on risks related to the potential future creation of mirror bacteria — synthetic organisms in which all molecules have reversed chirality (i.e. are ‘mirrored’). 1/x www.science.org/doi/10.1126/...

Can we bypass the resource bottleneck of pretraining genomic Foundation Models? Our work L2G repurposes language LLMs for genomics via cross-modal transfer, matching fine-tuned genomic FMs. Kudos to Wenduo & fantastic collab w/ @atalwalkar.bsky.social. L2G, language to genome; L2G, life’s too good!

Check out this systematic benchmark of genome-wide, annotation agnostic DNALMs & strong baseline ab-initio models for biologically meaningful tasks in regulatory genomics 1/