Junhong Choi

Lineage tracing reveals asynchronous fate restriction in mouse embryos and stem cell-derived embryo models

A DNA Typewriter records the cell lineage history of a mouse, from zygote to late organogenesis.

Mammalian biology unfolds over time, within tissues and organs opaque to our eyes and instruments. We applied DNA Typewriter, a sequential molecular recorder, to record the cell lineage of a mouse over nearly two weeks of development. From one embryo, we reconstruct a time-calibrated, parsimony-supported, zygote-rooted...

In vivo reconstruction of the cell lineage history of a developing mouse with DNA Typewriter, from zygote to late organogenesis

DNA Typewriter, a sequential molecular recorder, was applied to record the cell lineage of a mouse over nearly two weeks of development, reconstructing a time-calibrated, parsimony-supported, zygote-rooted phylogeny of 1.28M transcriptionally-profiled cells.

A fluctuation test for gastruloid heterogeneity.

Stem cells self-organize into models of early development, but even under carefully controlled conditions, the resulting organoids exhibit substantial "inter-individual" heterogeneity. To explore its origins, we generated monoclonal gastruloids, each derived from a single mouse embryonic stem cell (mESC). Molecular pro...

Lineage tracing reveals asynchronous fate restriction in mouse embryos and stem cell-derived embryo models

In vivo reconstruction of the cell lineage history of a developing mouse with DNA Typewriter, from zygote to late organogenesis

The complete cell lineage of C. elegans, mapped over four decades ago, was tractable because the animal is small, transparent, and lineage invariant1. Most animals are none of these, having orders of magnitude more cells, being opaque, and developing with substantial stochasticity2. Since 2016, genome editing-based lin...