iiinova — where your digital self keeps evolving

Reposted by Jerome

albertsxue.bsky.social @albertsxue.bsky.social · 02/03/2026

My preprint on keju, a statistical tool for Massively Parallel Reporter Assay (MPRA) data, is out! keju improves sensitivity, calibration, and reliability over previous methods by closely modeling important uncertainty sources in MPRAs. Check it out: www.biorxiv.org/content/10.6... (1/n)

biorxiv.org

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Reposted by Jerome

Harold Pimentel @hjp.bsky.social · 29/09/2025

Super excited to get this out. This collab started a few years ago and is the first paper from it. Here, with experimental and computational approaches we: 1. establish that cell villages can be just as accurate (one might argue more accurate!) than arrayed-based designs bsky.app/profile/bior...

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Reposted by Jerome

Jingyou Rao @jingyour.bsky.social · 04/08/2025

How do we decouple the effects of two functional phenotypes in protein deep mutational scanning (DMS)? Meet Cosmos, our new statistical framework for causal inference in multi-phenotype DMS. www.biorxiv.org/content/10.1... [1/n]

biorxiv.org

Cosmos: A Position-Resolution Causal Model for Direct and Indirect Effects in Protein Functions

Multi-phenotype deep mutational scanning (DMS) experiments provide a powerful means to dissect how protein variants affect different layers of molecular function, such as abundance, surface expression...

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Jerome @jeromics.bsky.social · 30/06/2025

Check out our new preprint on Lilace, a statistical tool for scoring FACS-based deep mutational scanning experiments! Lilace directly models the shift between variant fluorescence distributions and provides score uncertainty estimates to better assess reliability and reproducibility. (1/3)

biorxiv.org

Accurate variant effect estimation in FACS-based deep mutational scanning data with Lilace

Deep mutational scanning (DMS) experiments interrogate the effect of genetic variants on protein function, often using fluorescence-activated cell sorting (FACS) to quantitatively measure molecular ph...

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