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dkotliar.bsky.social

@dkotliar.bsky.social

dkotliar.bsky.social @dkotliar.bsky.social · 03/09/2025

Try it out here! immunogenomics.io/starcat/ Your data stays in the browser and doesn't get uploaded anywhere! For larger datsaets, you can run it from python or the command line. Let me know if you have a gene program catalog you'd like to add. github.com/immunogenomi...

immunogenomics.io

starcat

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dkotliar.bsky.social @dkotliar.bsky.social · 03/09/2025

We also made a website and python API to run starCAT with several other published gene program catalogs including a myeloid reference from @tymillerlab.bsky.social et al and a hematapoetic stem cell reference from @bloodandtime.bsky.social and Hojun Li

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dkotliar.bsky.social @dkotliar.bsky.social · 03/09/2025

Some highlights from the revision: We applied starCAT to several cancer datasets and found that having more proliferating and activated CD4 and CD8 T cells in a tumor predicts immune checkpoint inhibitor resistance. starCAT made this very easy to test!

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dkotliar.bsky.social @dkotliar.bsky.social · 03/09/2025

Paper from me, Michelle Curtis, @soumya-boston.bsky.social and co out now in @natmethods.nature.com! We now call it starCAT instead of *CAT but the strategy is the same: Build a catalog of ~50 interpretable T cell gene expression programs + use them to interpret new data nature.com/articles/s41...

nature.com

Reproducible single-cell annotation of programs underlying T cell subsets, activation states and functions - Nature Methods

TCAT is a pipeline that can simultaneously capture gene expression programs related to T cell subsets and activation states for accurate T cell characterization.

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