iiinova — where your digital self keeps evolving

Reposted by Julia Rogers

Minji Lee @m1nj2.bsky.social · 21/04/2026

We introduce ConforNets, a mechanism for conformational control in AlphaFold3 models - SoTA at producing diverse conformations on every multistate benchmark (N=104) - Novel capability: transfer state from one protein to another Outperforms BioEmu, ConforMix and AFsample3 🧵1/8

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Julia Rogers @juliarurogers.bsky.social · 10/09/2025

First time at #MLCB! I'll be speaking tomorrow about my development of an ML predictor of domain–peptide interaction affinity to model proteome-scale signaling networks. It'll be livestreamed too.

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Julia Rogers @juliarurogers.bsky.social · 08/07/2025

I am beyond excited and honored to receive a BWF CASI! This amazing program will support my transition from postdoc to faculty as I continue to develop new modeling frameworks for elucidating and programming cellular behaviors.

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Reposted by Julia Rogers

Martin Steinegger 🇺🇦 @martinsteinegger.bsky.social · 27/04/2025

AFESM: a metagenomic guide through the protein structure universe! We clustered 821M structures (AFDB&ESMatlas) into 5.12M groups; revealing biome-specific groups, only 1 new fold even after AlphaFold2 re-prediction & many novel domain combos. 🧵 🌐 afesm.foldseek.com 📄 www.biorxiv.org/content/10.1...

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Reposted by Julia Rogers

Gabriel Rocklin @grocklin.bsky.social · 26/03/2025

Small proteins can be more complex than they look! We know proteins fluctuate between different conformations- but by how much? How does it vary from protein to protein? Can highly stable domains have low stability segments? @ajrferrari.bsky.social experimentally tested >5,000 domains to find out!

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Reposted by Julia Rogers

Alisia Fadini @alisiafadini.bsky.social · 24/02/2025

Structural biology is in an era of dynamics & assemblies but turning raw experimental data into atomic models at scale remains challenging. @minhuanli.bsky.social and I present ROCKET🚀: an AlphaFold augmentation that integrates crystallographic and cryoEM/ET data with room for more! 1/14.

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Julia Rogers @juliarurogers.bsky.social · 18/02/2025

Enjoying #BPS2025! I'll present my development of a ML predictor of domain–peptide binding affinity to understand how affinity is optimized across the proteome for cell signaling. Finish out the meeting by coming to my talk tomorrow (Wed) @ 1pm!

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Reposted by Julia Rogers

Borna Novak @bornanovak.bsky.social · 15/02/2025

Excited to announce the newest member of the flock - STARLING (conSTruction of intrinsicAlly disoRdered proteins ensembles efficientLy vIa multi-dimeNsional Generative models). www.biorxiv.org/content/10.1...

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Reposted by Julia Rogers

Etowah Adams @etowah0.bsky.social · 10/02/2025

Can we learn protein biology from a language model? In new work led by @liambai.bsky.social and me, we explore how sparse autoencoders can help us understand biology—going from mechanistic interpretability to mechanistic biology.

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Reposted by Julia Rogers

Frank Noe @franknoe.bsky.social · 06/12/2024

Super excited to preprint our work on developing a Biomolecular Emulator (BioEmu): Scalable emulation of protein equilibrium ensembles with generative deep learning from @msftresearch.bsky.social ch AI for Science. www.biorxiv.org/content/10.1...

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Reposted by Julia Rogers

Alice Ting @aliceyting.bsky.social · 04/12/2024

Could one envision a synthetic receptor technology that is fully programmable, able to detect diverse extracellular antigens – both soluble and cell-attached – and convert that recognition into a wide range of intracellular responses, from gene expression and real-time fluorescence to modulation..

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Reposted by Julia Rogers

EvolutionaryScale @evolutionaryscale.bsky.social · 04/12/2024

Introducing ESM Cambrian, a new family of protein language models, focused on creating representations of the underlying biology of proteins.

Model Scale vs. Performance curves for ESM C models, with comparisons to ESM2 and other protein LMs. ESMC performs better than existing state of the art for the same model parameter scale.

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