Soumya Raychaudhuri সৌম্য রায়চৌধুরী @soumya-boston.bsky.social · 05/08/2026So excited to share this work with @ytomofuji.bsky.social! It represents a rare and complete functional dissection of an important autoimmune locus: CD40. @broadinstitute.org @mgbresearch.bsky.social #genetics #rheumatoidarthritis 090
Soumya Raychaudhuri সৌম্য রায়চৌধুরী @soumya-boston.bsky.social · 27/10/2025Mapping response eQTLs in data sets using single-cell statistical models! Congrats to Cristian Valencia and team! www.nature.com/articles/s41...nature.comModeling heterogeneity in single-cell perturbation states enhances detection of response eQTLs - Nature GeneticsModeling 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... 020
Soumya Raychaudhuri সৌম্য রায়চৌধুরী @soumya-boston.bsky.social · 28/09/2025Dear 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...danafarber.jimmyfund.orgI am walking for Dana-Farber patientsTogether against cancer at the Jimmy Fund Walk 000
Reposted by Soumya Raychaudhuri সৌম্য রায়চৌধুরীsreekarmantena.bsky.social @sreekarmantena.bsky.social · 29/08/2025Excited to share our preprint studying the genetics of T cell receptors! bit.ly/tcrdiversity with @soumya-boston.bsky.social @broadinstitute.org 🧵doi.orgTCR germline diversity reveals evidence of natural selection on variable and joining alpha chain genesT 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... 141
Reposted by Soumya Raychaudhuri সৌম্য রায়চৌধুরীdkotliar.bsky.social @dkotliar.bsky.social · 03/09/2025Paper 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.comReproducible single-cell annotation of programs underlying T cell subsets, activation states and functions - Nature MethodsTCAT is a pipeline that can simultaneously capture gene expression programs related to T cell subsets and activation states for accurate T cell characterization. 195
Soumya Raychaudhuri সৌম্য রায়চৌধুরী @soumya-boston.bsky.social · 02/09/2025Our exciting new manuscript disentangling the human TCR locus! 010
Soumya Raychaudhuri সৌম্য রায়চৌধুরী @soumya-boston.bsky.social · 18/08/2025So 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...biorxiv.orgA population-scale atlas of blood and tissue in lupus nephritisLupus 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... 074
Reposted by Soumya Raychaudhuri সৌম্য রায়চৌধুরীBroad Institute @broadinstitute.org · 07/08/2025Next 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 062
Reposted by Soumya Raychaudhuri সৌম্য রায়চৌধুরীNature @nature.com · 29/07/2025Nature research paper: Precisely defining disease variant effects in CRISPR-edited single cells go.nature.com/44M3ygXgo.nature.comPrecisely defining disease variant effects in CRISPR-edited single cells - NatureA 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. 2186
Soumya Raychaudhuri সৌম্য রায়চৌধুরী @soumya-boston.bsky.social · 24/07/2025So 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...nature.comPrecisely defining disease variant effects in CRISPR-edited single cells - NatureA 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... 0155
Reposted by Soumya Raychaudhuri সৌম্য রায়চৌধুরীBroad Institute @broadinstitute.org · 16/07/2025Join 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... 072
Reposted by Soumya Raychaudhuri সৌম্য রায়চৌধুরীTom Ulrich (he/him) @scribblertom.com · 17/07/2025I'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! 033
Soumya Raychaudhuri সৌম্য রায়চৌধুরী @soumya-boston.bsky.social · 09/06/2025Excited to be at the #HCA2025GM meeting! 010
Soumya Raychaudhuri সৌম্য রায়চৌধুরী @soumya-boston.bsky.social · 27/02/2025Check out @saorisakaue.bsky.social ‘s study today demonstrating the differences in early RNA and late RNA eQTLs! 020
Reposted by Soumya Raychaudhuri সৌম্য রায়চৌধুরীProPublica @propublica.org · 16/02/2025#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.propub.liThe Staffers Helping Elon Musk Dismantle and Downsize the U.S. Government, One Agency at a TimeMusk 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… 28263003084
Soumya Raychaudhuri সৌম্য রায়চৌধুরী @soumya-boston.bsky.social · 12/02/2025Check out our latest from @yakirreshef.bsky.social! 011
Reposted by Soumya Raychaudhuri সৌম্য রায়চৌধুরীYakir Reshef @yakirreshef.bsky.social · 12/02/2025Excited 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.orgbiorxiv.orgPowerful and accurate case-control analysis of spatial molecular data with deep learning-defined tissue micronichesAs 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... 186
