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youngsuko9.bsky.social

@youngsuko9.bsky.social
49 followers 267 following 6 posts

PhD student at UCSD, biochemistry and molecular biophysics, working on bio+ml

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Reposted by @youngsuko9.bsky.social
Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · 04/01/2025
We’re getting more and more papers on de novo protein design, but I still don’t really know what it means What’s your definition of de novo design?
Plot that shows an increasing number of papers about de novo protein design
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Reposted by @youngsuko9.bsky.social
Rohit Singh @rohitsingh8080.bsky.social · 19/03/2025
We've updated the Raygun preprint with additional validations (more fluorescence assays, biotin ligase reengineering, EGF optimization etc.) Take a look! Here's the preprint: www.biorxiv.org/content/10.1...
biorxiv.org
Miniaturizing, Modifying, and Magnifying Nature's Proteins with Raygun
Proteins have evolved over billions of years through extensive and coordinated substitutions, insertions and deletions (indels). Computational protein design cannot yet fully mimic nature's ability to...
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Reposted by @youngsuko9.bsky.social
Rohit Singh @rohitsingh8080.bsky.social · 08/12/2024
Congratulations to @youngsuko9.bsky.social on their top-10 placement in Adaptyv Bio's EGFR-binder competition! It's an elegant pipeline-- using our protein-design method Raygun to expand and modify the template (EGF), then filtering with ProTrek. foundry.adaptyvbio.com/competition 1/
foundry.adaptyvbio.com
Adaptyv Foundry
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Reposted by @youngsuko9.bsky.social
Anshul Kundaje @anshulkundaje.bsky.social · 04/12/2024
This is really horrific. These single cell reference atlases are widely used as is to train all kinds of models! This is one of the reasons I've constantly harping about uniform reprocessing & extremely careful QC of large atlases. 1/
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Reposted by @youngsuko9.bsky.social
Pooja Kathail @poojakathail.bsky.social · 20/11/2024
Super excited to share our review on genomic deep learning models for non-coding variant effect prediction, with Ayesha Bajwa and Nilah Ioannidis. We’d like this review to be a useful resource, and welcome any feedback, comments, or questions! 1/4 arxiv.org/abs/2411.11158
arxiv.org
Leveraging genomic deep learning models for non-coding variant effect prediction
The majority of genetic variants identified in genome-wide association studies of complex traits are non-coding, and characterizing their function remains an important challenge in human genetics. Gen...
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Reposted by @youngsuko9.bsky.social
Yunha Hwang @microyunha.bsky.social · 19/11/2024
Hello 🦋 #protein / #microbio / #BioML community! We are excited to release Gaia🌎, a context-aware protein search tool, extending protein search and discovery capabilities beyond sequence and structure, to include *genomic context*. Search your favorite protein sequences with on gaia.tatta.bio
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