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Nicholas Perry

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@ntperry13

Applying Claude to Life Sciences @AnthropicAI
Palo Alto, CA Joined August 2018
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Nicholas Perry Verified account @ntperry13
Thrilled to share new work from our experimental biology lab at @AnthropicAI. Led by world-class biochemist Januka Athukoralage, we built a rapid method for the isolation and structural characterization of vaults. It turns out these massive structures are not just found in eukaryotic cells, but also in prokaryotes and even phages. We solve the structure of one of these phage vaults, and then demonstrate we can engineer additional repeats into the wall to make it bigger.

One thing I can't get over about these vaults. They seem to be widespread across life - we assembled them from 8 different bacteria and bacteriophages. But they are just so massive - bigger than ribosomes, AAV, and even some phage capsids. Why devote so much energy to making these huge complexes? They have to be doing something useful - I hope that's the question that gets answered next.

Amazing collaboration with @PeterHYoon, @amirshanehsaz, @eric_kabrams, and @mgdurrant! Grateful to our team for making Claude an amazing labmate and to Anthropic for supporting this type of work on fundamental biology.

Natural mysteries abound - let's get to solving them!

Links here:

Blog: anthropic.com/research/inves…

Technical report: www-cdn.anthropic.com/76e55fbe85697a…
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Nicholas Perry Verified account @ntperry13
Biology manifests through sequences, and we can learn a lot from examining sequence databases. That is traditionally hard because the databases are huge. So we put troops of Claude on a mission: find new partner genes of reverse transcriptases (RTs) in 1.9B protein clusters.

We were surprised by what came back. Claude turned up a strange CRISPR-like RT system we didn't ask for. It is an RT from jumbo phages with an array of repeats upstream and a dedicated partner gene. We call these array-associated RTs (ART).
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Nicholas Perry Verified account @ntperry13
Thrilled to share news of our team and the research we’re doing at Anthropic! Over the last year, the advance of Claude’s capabilities in biology has been breathtaking. As “traditional” molecular biologists, it has been shocking how rapidly we have changed our approach to incorporate Claude in our biology research, and in many ways I’m finally feeling what I think the computer science community has been for a couple years now. I’m excited to continue to leverage this to surface interesting, exciting, and important biology for study. And, I’m even more excited that our team can go all the way from hypothesis to experimental confirmation in our own lab!
Anthropic Verified account @AnthropicAI Sep 23
Claude has discovered a previously unknown enzyme system hidden in the DNA of bacteriophages. Beside the enzyme’s gene sits a long array of repeating DNA—a structure that looks somewhat similar to CRISPR.

We don’t yet understand what this system does, but only a handful of known systems share its features, and all of them are able to cut, copy, and paste DNA. Historically, the discovery of such programmable systems has helped revolutionize medicine. CRISPR, for instance, is now the foundation of genetic medicines. But it will take much more work to learn what this system does, and whether it can be put to similar use.

Read more: anthropic.com/news/claude-di…
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Nicholas Perry Verified account @ntperry13
Huge congrats to the team! It seems there’s no limit to amazing things lurking undescribed in genomes
Kenneth Loi Verified account @kenjmloi Apr 27
Excited to share our discovery of a new programmable RNA-guided DNA-targeting system hiding inside bacteriophages that predates CRISPR.

We call it VIPR (Viral Interference Programmable Repeat), and it uses an entirely new logic to find its targets.

Thread + link below.
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