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This is HUGE: FDA is phasing out the animal testing requirement for new drugs! This opens the door for virtual cell models (eg scGPT) to lead the way: •Predict human responses better •Cut dev time + cost •Ethically superior •FDA-backed •Built for personalized medicine The

Excited to share some updates on lineage tracing from my lab: 1. A comprehensive evaluation on mtDNA lineage tracing by combining simulations and real data analysis doi.org/10.1186/s13059… 2. A novel phylodynamic inference framework for cell lineage trees doi.org/10.1016/j.cels…

Very nice mouse kidney atlas !!! Multi-omic and spatial analysis of mouse kidneys highlights sex-specific differences in gene regulation across the lifespan | ⁦Nature Genetics⁩ nature.com/articles/s4158…

1/ Excited to share CellFlow, a new approach for complex perturbation modeling in single-cell genomics based on flow matching. From cytokine screens to cell fate and organoid engineering, we show CellFlow’s broad power across many diverse tasks. 👉 Paper: biorxiv.org/content/10.110…

James Lee and Damien Morris have an interesting perspective paper out describing "some far-reaching conclusions" about the genetics of intelligence. This type of "where are we now" paper is very fun and more people should write them! So, where are we now? 🧵

Some personal news: I’ve been promoted to tenured Associate Professor at the University of Toronto University of Toronto . When I moved here from Stanford (Stanford University) six years ago, I had no connections, no lab, just a belief that AI could change how we understand and deliver healthcare. What I

Very excited to share that pgBoost is now published in Nature Genetics !!🧬 pgBoost is a regulatory SNP-gene linking framework combining single-cell multiome methods and genomic distance, informed by eQTL. Read more here: nature.com/articles/s4158…

Really excited about our lab's latest paper led by Kevin Korfmann. Here, Kevin has developed a deep, transformer-based language model for population genetics for inferring coalescent times (times of common ancestry) along recombining chromosomes. biorxiv.org/content/10.110…

Very excited to share our new work on gastruloids by the incredible Cat Triandafillou! We mapped gene expression across 26 individual gastruloids at single-cell resolution and discovered some pretty amazing patterns about how these "mini-embryos" organize themselves.

New preprint with Guy Sella on the question: what is polygenicity? biorxiv.org/content/10.110…

When cellular reprogramming meets AI: towards de novo cell design | Nature Reviews Genetics nature.com/articles/s4157…