Soumya Raychaudhuri সৌম্য রায়চৌধুরী

Modeling heterogeneity in single-cell perturbation states enhances detection of response eQTLs - Nature Genetics Modeling of per-cell perturbation states in single-cell RNA sequencing datasets enhances detection of response expression quantitative trait loci and helps prioritize genetic regulatory effects in dis...

Mapping response eQTLs in data sets using single-cell statistical models! Congrats to Cristian Valencia and team!
www.nature.com/articles/s41...

I am walking for Dana-Farber patients Together against cancer at the Jimmy Fund Walk

Dear friends, I will be participating in the Jimmy Fund walk to support @DanaFarber. Please use the link below to donate anything you are comfortable with to this worthy cause, and please share. Thanks so much in advance for your support!

danafarber.jimmyfund.org/site/TR?px=2...

TCR germline diversity reveals evidence of natural selection on variable and joining alpha chain genes T cell receptors (TCRs) orchestrate adaptive immunity, yet the complex, repetitive architecture of the TCR loci has impeded systematic characterization of human genetic variation in the genes encoding...

Excited to share our preprint studying the genetics of T cell receptors! bit.ly/tcrdiversity with @soumya-boston.bsky.social @broadinstitute.org 🧵

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.

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...

Our exciting new manuscript disentangling the human TCR locus!

A population-scale atlas of blood and tissue in lupus nephritis Lupus nephritis (LN), a severe manifestation of Systemic lupus erythematosus (SLE), is a heterogeneous disease driven by diverse immune and tissue cell types. Current treatments of LN are non-specific...

So excited to share our latest with Betty Diamond and many colleagues from the AMP RA/SLE consortium, NIAMS, and @niaidnews.bsky.social! A large-scale blood and tissue atlas of Lupus Nephritis! www.biorxiv.org/content/10.1...

Next week! Join us on Thursday, August 14 at 6PM ET in Cambridge, MA (or online) for a Broad Discovery Series talk with @soumya-boston.bsky.social, “Arthritis, autoimmunity, and how the genome works.” Register: broadinstitute.swoogo.com/DiscoverySeries25

Precisely defining disease variant effects in CRISPR-edited single cells - Nature A plate-based assay called CRAFTseq has been developed that uses ‘multi-omic’ single-cell RNA sequencing and direct genotyping of CRISPR edits to test the functional effects of genetic variants on cell state and function.

Nature research paper: Precisely defining disease variant effects in CRISPR-edited single cells

go.nature.com/44M3ygX

Precisely defining disease variant effects in CRISPR-edited single cells - Nature A plate-based assay called CRAFTseq has been developed that uses ‘multi-omic’ single-cell RNA sequencing and direct genotyping of CRISPR edits to test the functional effects of genetic variants o...

So excited to share our latest study on defining the function of disease variants by editing single cells, and assuming them with CRAFT-seq! Special thanks to @zpmu.bsky.social and @baglaenkolab.bsky.social! @broadinstitute.org

www.nature.com/articles/s41...

talk poster

Join us on Thursday, August 14 at 6 PM ET in Cambridge, MA – or online – for a Broad Discovery Series talk with @soumya-boston.bsky.social : “Arthritis, autoimmunity, and how the genome works.” Register: broadinstitute.swoogo.com/DiscoverySer...

I've always found @soumya-boston.bsky.social's research to be absolutely fascinating, and I'm excited to bring him on-stage for the next talk in the @broadinstitute.org's Broad Discovery Series. Join us in-person or online on 8/14!

Excited to be at the #HCA2025GM meeting!

Check out @saorisakaue.bsky.social ‘s study today demonstrating the differences in early RNA and late RNA eQTLs!

The Staffers Helping Elon Musk Dismantle and Downsize the U.S. Government, One Agency at a Time Musk and his lieutenants are reshaping the government and its mission with the blessing of President Trump. ProPublica has confirmed the names and roles of more than 30 staffers affiliated with the…

#ICYMI: ProPublica has confirmed the names and roles of more than 30 Musk-affiliated staffers who are helping the world’s richest man dismantle or downsize federal agencies one by one.

Check out our latest from @yakirreshef.bsky.social!

Powerful and accurate case-control analysis of spatial molecular data with deep learning-defined tissue microniches As spatial molecular data grow in scope and resolution, there is a pressing need to identify key spatial structures associated with disease. Current approaches often rely on hand-crafted features such...

Excited to tell you about VIMA (Variational Inference-based Microniche Analysis), our deep learning + stats hybrid for case-control analysis of multi-sample spatial molecular datasets. 🧵👇 www.biorxiv.org/content/10.1... @soumya-boston.bsky.social @broadinstitute.org