How to pick a problem. Today in Cell. 1/53
cell.com/cell/fulltext/…

Announcing the Single Cell Congress Asia meeting, to be held in Singapore 11th-12th July! Featuring keynote talks from Joseph Powell, Hongkui Zeng, and Xuegong Zhang. Registration is free: global-engage.com/product/single…

I’m excited to share our latest work on enhancing the power to detect response expression quantitative trait loci (reQTLs) at single-cell resolution across different perturbations conditions:
biorxiv.org/cgi/content/sh…
with
Soumya Raychaudhuri সৌম্য রায়চৌধুরী Broad Institute and co-authors 👇

Excited to share AllofUsResearch program’s flagship genomics paper describing 245,388 clinical-grade genome sequences encompassing >1 billion genetic variants published today in nature
nature.com/articles/s4158…

Exciting news!

We have an amazing opportunity for a lab tech who can help us define the function of individual variants. If you are passionate about CRISPR editing of primary human cells please DM me ASAP!
#genomics Brigham and Women’s Research Broad Institute
partners.taleo.net/careersection/…

I wrote down my rules on how to Science. I hope you find it useful!

2023: The rise of precision cellular therapies.

In this Year in Review, I highlight 3 major advances set to transform the treatment of autoimmune and rheumatic diseases. From CAR-T cells to antigen-specific, precision immunotherapies.

Link: rdcu.be/dvsaG

Congratulations to Laurie Rumker! She defended a thesis describing comprehensive, careful and creative work using multi-sample single cell data to identify disease and genetic effects on cell states with #singlecell data. Congratulations Dr. Rumker!

#singlecell folks! I'm looking for a tool to call SNPs from scRNA-seq - ideally, takes in CellRanger bam files for each sample and outputs a VCF - does anyone have suggestions? 🙏

me waiting to cut the suture either too long or too short

We profiled #scRNAseq of 386,703 cells and uncovered 17+ immune cell types in lymph nodes.

Well-known cytokine-responsive genes, such as Il4i1 in response to IL-4, Tnfaip3 in response to TNF, are robustly upregulated in our dictionary.

#ImmuneDictionary 6/

Mapping the dynamic genetic regulatory architecture of HLA genes at single-cell resolution Soumya Raychaudhuri সৌম্য রায়চৌধুরী Joyce Kang, PhD
nature.com/articles/s4158…

Exciting day for the lab! Two papers out in Nature Genetics, both about integrating genetic data with single cell data! Special thanks to lead authors Anika Gupta and Joyce Kang, PhD
rdcu.be/dsrz2
rdcu.be/dsrzB

Excited to share the next chapter of primate genomics in nature, where we (@illumina, Institute of Evolutionary Biology (IBE), and BCMHouston) created a multiple sequence alignment of 239 primate species to better understand non-coding regulatory elements!

nature.com/articles/s4158…

We are excited to share Genotype-Neighborhood Associations, GeNA, a new tool adapting our CNA framework to detect cell states associated in abundance with genetic variants at genome-wide scale in high-dimensional single-cell data w/ Soumya Raychaudhuri সৌম্য রায়চৌধুরী doi.org/10.1101/2023.1… 🧵

Very excited to share our highly collaborative work as part of the NIAMS AMP-RA/SLE network. We mapped single cell tissue states in #rheumatoid #arthritis .
nature.com/articles/s4158…

Excited 🙌 to see our highly collaborative work out today at nature Foundation for the National Institutes of Health NIAMS nature.com/articles/s4158… with A. Helena Jonsson Soumya Raychaudhuri সৌম্য রায়চৌধুরী Jen Anolik Deepak Rao Laura Donlin and Brenner and NIH AMP network!! CU Anschutz Division of Rheumatology CU Department of Biomedical Informatics (DBMI) CU Anschutz Medical Campus

Aneuploidy is a defining feature of cancer cells, but is it also present in healthy normal tissues? In our paper out today on Nature Genetics, we report hundreds of mosaic chromosomal alterations (mCAs) found in diverse tissues from #GTEx . A thread (1/7)
nature.com/articles/s4158…

Rheumatology moved closer to the holy grail after this one in Nature Medicine

Eliminating TRBV9+ T cells that recognize arthritogenic peptides presented by HLA-B27:
🫱 Remission of refractory AS
🫱 Spares immunosuppression
🫱 Currently in phase II trial

nature.com/articles/s4159…