Jonathan Weissman's Lab

📣 new preprint multimodal atlas. Imaging + scRNA, 57M cells. 🧬🔬 Cells are complex dynamical systems — but most ways we measure them destroy them. We asked: how does live imaging compare to scRNA-seq, the field’s gold std? The answer surprised us 🧵 biorxiv.org/content/10.648…

What is the global structure of cell-state space—and how do perturbations drive transitions within it? Excited to share our new preprint (biorxiv.org/content/10.648…), a work in collaboration with @JswLab.

A few years in the making in the @JswLab with @WilliamNColgan, Zack Smith, and the rest of our fantastic team: Comprehensive Lineage Tracing Maps the Landscape of Cell Fate Decisions in Mouse Embryogenesis. Excited to hear everyone's thoughts!

Special thank you to @WhiteheadInst @broadinstitute @kochinstitute @HHMI_science @czi @NIH

This has been a wonderful collaboration between our group and Zachary Smith’s Group @yalemed and the Max Planck Institute with important contributions from @nir_yosef1 @WeizmannScience, @ZhuangLab @HarvardCCB, and Kyle Loh @Stanford

Excited to share a new preprint from the lab led by @LukeKoblan and @WilliamNColgan in which we describe our efforts to define a quantitative cell fate map of mouse embryogenesis! biorxiv.org/content/10.648…

There is plenty more in the manuscript so please give it a read, we are excited to hear feedback from the community. Stay tuned for exciting next steps!

The scale and density of this dataset provide a framework for quantifying cell fate restriction dynamics–the frequency, reproducibility, and variance of fate decisions across embryos–and enabling a unified view of embryogenesis to uncover core principles of mouse development