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)

Happy to see this work out now in Genome Biology! Check out the final version here for your FACS DMS needs: link.springer.com/article/10.1...

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

Deep mutational scanning (DMS) coupled with fluorescence-activated cell sorting (FACS) provides a high-throughput method to link genetic variants with quantitative molecular phenotypes. Analysis of th...

link.springer.com

Jerome@jeromics.bsky.social · last yr.

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)

go say hi to my friend Aditya!

Aditya Pimplaskar@apimplaskar.bsky.social · 12mo ago

Would love to connect/discuss projects w/ folks interested in EHR-based phenotyping methods for genetic studies, psychiatric genetics, and perinatal health! #ASHG25

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...

bioRxiv Genetics@biorxiv-genetic.bsky.social · 12mo ago

Cell villages and Dirichlet modeling map human cell fitness genetics https://www.biorxiv.org/content/10.1101/2025.09.26.678880v1

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]

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...

biorxiv.org

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)

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...

biorxiv.org

I am hiring for a research technician role in my new lab at UC Irvine studying how transcription factors control cell identity. If you know any graduating undergrads or postbacs looking for a position, please spread the word! Apply by May 9 for full consideration. recruit.ap.uci.edu/JPF09594

Junior / Assistant Specialist: Kim Lab, Developmental & Cell Biology

University of California, Irvine is hiring. Apply now!

recruit.ap.uci.edu

Hi friends new and old! I study how microbes interact and evolve in complex communities like the human gut microbiome.🦠🧬💩 I'm thrilled to share that I'm starting a lab at UC Irvine in April 2025 and am recruiting at all levels - please spread the word! kxuelab.com More about my work below...🧵1/n

Xue lab at UC Irvine

Ecology and evolution in the human gut microbiome

kxuelab.com

Meet Rosace, a robust deep mutational scanning analysis tool that incorporates positional information and mean-variance shrinkage. Check it out if you are running DMS experiments or handling DMS data! (1/n) www.biorxiv.org/content/10.1...

Rosace: a robust deep mutational scanning analysis framework employing position and mean-variance sh...

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