Ruizhao WANG

AF2BIND: predicting small-molecule binding sites using the pair representation of AlphaFold2 Nature Methods - AF2BIND is a logistic regression model trained on AlphaFold2 pair features to predict small-molecule binding-site residues in proteins, without multiple sequence alignments,...

Our paper with @sokrypton.org using AlphaFold2 to predict small-molecule binding sites in proteins is now out in Nature Methods! 🧵
rdcu.be/e7SnX
www.nature.com/articles/s41...

Not sure if they have an international commercial team. But I know their antibodies are quite good somehow, maybe I could reach out to them if you need? You can PM me if necessary.

I can tell Huabio is a real company!😀

Thanks! I see, then anti-NRXN3α is impossible to detect NRXN3β, but anti-NRXN3β has a possibility to detect NRXN3α.

Great tools! For anti-NRXN3a/b antibodies, does they recognize each other? I saw the test data, and most likely a does not cross with NRXNa families, and b does not cross with NRXNb families. It would be great to know does anti-NRXN3a antibody detect NRXN3b and vice versa.

Saw a familiar face. Congratulations Rohith!

PANCS-spec-Binders: A system for rapidly discovering isoform- or epitope-specific binders Proteins that bind to a target protein of interest, termed "binders," are essential components of biological research reagents and therapeutics. Target proteins present multiple binding surfaces with ...

Check out our newest work! This is a story on how to get selectivity in binders - both isoform and site selectivity. Read the paper or enjoy this brief Skytorial of what we did!

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

1/n

How cool it is!!

How do cells adapt morphology to function? In a 🔥 preprint by @zjmaggiexu.bsky.social , with @dudinlab.bsky.social and @amyweeks.bsky.social , we identify a self-organizing single-cell morphology circuit that optimizes the feeding trap structure of the suctorian P. collini. 🧵 tinyurl.com/4k8nv926

A parts list of promoters and gRNA scaffolds for mammalian genome engineering and molecular recording - Nature Biotechnology Prime editing in mammalian cells benefits from a comprehensive list of genetic parts.

A parts list of promoters and gRNA scaffolds for mammalian genome engineering and molecular recording - @jshendure.bsky.social @troymcdiarmid.bsky.social @uwgenome.bsky.social go.nature.com/49eTPCu

Fun to see this thread answer some questions I had, thank you.

Cool! This could have a lot of influence on sensors, pull down, signaling rewiring...🤔

I see👍 thank you!

I would like to hear some suggestions on why you think we should not use it?

🚀 Our new paper is out @natmethods.nature.com!

Kuffer & Marzilli engineered conditionally stable MS2 & PP7 coat proteins (dMCP & dPCP) that degrade unless bound to RNA, enabling ultra–low-background, single-mRNA imaging in live cells.

🔗 www.nature.com/articles/s41...
🧬 www.addgene.org/John_Ngo/

Thank you, looks very cool! Can I message you about the cell marker you are using here?

Very cool! What kind of cell types are used here, and what kind of microscope is used? How long does the imaging take?

PANCS-Binders (phage-assisted noncontinuous selection of protein binders) screens multiple high-diversity protein libraries against a panel of dozens of targets for high-throughput binder discovery. @chembiobryan.bsky.social @mstyles-chembiol.bsky.social

www.nature.com/articles/s41...

That was so cool!

Humanized Caffeine-Inducible Systems for Controlling Cellular Functions https://www.biorxiv.org/content/10.1101/2025.06.13.659463v1

That was cool👍

Cool, intresting findings, could be invented as tool for transcription control?

Very cool study!

I have a lot of recommendations if you are in China😀

Genomes encode biological complexity, which is determined by combinations of DNA mutations across millions of bases

In new work @arcinstitute.org, we report the discovery and engineering of the first programmable DNA recombinases capable of megabase-scale human genome rearrangement

Congrats! Useful tools!

Far-red chemigenetic kinase biosensors enable multiplexed and super-resolved imaging of signaling networks - Nature Biotechnology Far-red kinase biosensors are applied to image kinase signaling networks at super resolution.

Far-red chemigenetic kinase biosensors enable multiplexed and super-resolved imaging of signaling networks - @michellefrei17.bsky.social @jinzhanglab.bsky.social go.nature.com/3GfqrzL

Smart idea! Bring phos-sensor to transcription activation?

Wow, I heard the report before. Congratulations!

Wow, congratulations!