Alex Chu

a cartoon says hey everybody an old man 's talking while bart simpson looks on ALT: a cartoon says hey everybody an old man 's talking while bart simpson looks on

Bluetorial: Adventures with tenure-Part 1

FACS‐Sortable Triple Emulsion Picoreactors for Screening Reactions in Biphasic Environments Biphasic reactions can enhance reactions where the catalyst and substrate have different solvent preferences. This study optimizes triple emulsion picoreactors that encapsulate a biphasic solvent env...

Many industrially-important reactions (e.g. lipase-catalyzed biofuel production) involve substrates poorly soluble in water. How can we screen enzymes for these reactions? Samuel Thompson invented a new 'triple emulsion' platform for biphasic screening (1/n):
onlinelibrary.wiley.com/doi/full/10....

At neurips this week - hmu if you’re around, want to catch up, try out some food, explore, etc!

Latent diffusion ftw!

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...

Evolution is non-linear, the next step in the evolutionary lineage of the ESM series of models is a sequence only protein language model that sets a new state of the art in representation learning.

Check it out! The 300M and 600M models are open weights, 300M available for commercial usage.

AI Proteins Announces Research Collaboration and Option Agreement with Bristol Myers Squibb for Miniprotein-Based Therapeutics Valued up to $400M AI Proteins, Inc., a biotechnology company that utilizes computational de novo protein design to create therapeutic miniproteins, today announced that

AI Proteins is excited to partner with @bms-news.bsky.social to develop novel miniprotein-based therapeutics. This collaboration will leverage our cutting-edge AI-driven platform to design and optimize miniproteins with the potential to transform patient outcomes
www.businesswire.com/news/home/20...

“On a log-log plot, my grandmother fits on a straight line.”
-Physicist Fritz Houtermans

There's a lot of truth to this. log-log plots are often abused and can be very misleading

1/5

AF3 BEST METHOD followed by cluspro but also some conversion errors

go.bsky.app/BoXpqQp
Computational protein design starter pack. Let me know if I missed you!

Much needed! can I be added too?

Asking the following earnestly: what is the strongest case for GANs standing the "test of time"? Are they important 10 years later in modern ML research? How have they influenced the way we think about generative models today?

A new golden age of discovery In this essay, we take a tour of how AI is transforming scientific disciplines from genomics to computer science to weather forecasting. Some scientists are training their own AI models, while...

A great new essay on AI for Science from our colleagues here:

deepmind.google/public-polic...

Amazing blog post on flow matching, stunning visuals! It also makes the connection with normalising flows crystal clear. Incredible effort!

A weekend project from a while back -- this little package (with no dependencies) allows you to interact with pymol remotely.

I use it a lot for my protein design workflows together with @biotite.bsky.social.

Just `pip install pymol-remote`

Scaling Down for Efficiency: Medium-Sized Transformer Models for Protein Sequence Transfer Learning Protein language models such as the transformer-based Evolutionary Scale Modeling 2 (ESM2) can offer deep insights into evolutionary and structural properties of proteins. While larger models, such as...

The complete guide for transfer learning with the protein language model ESM-2.

(In brief: Use ESM-2 650M and calculate mean embeddings across sites.)
www.biorxiv.org/content/10.1...

Thanks! excited to be here

Experimental kcat and KM measurements for hundreds of naturally variants of adenylate kinase.
- thermophilic enzymes are not slower than mesophilic!
- general kcat/KM predictors are bad and easily beaten by models trained on this specific dataset!

www.biorxiv.org/content/10.1...

👋

Laboratory Research Scientist, Protein Design, Science London, UK

Our team at deepmind is hiring! boards.greenhouse.io/deepmind/job...