Matt Thomson

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

A lineage-resolved view of embryogenesis reveals that cell identity alone predicts neither developmental ancestry nor the timing of fate restriction, and builds FateVec, an analysis framework that infers fate-bias dynamics and lineage-associated transcriptional programs from reconstructed phylogenies.

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

Spatial second-order features predict glioma malignant transformation

Isocitrate dehydrogenase (IDH) mutant gliomas often transform from low to high grade aggressive tumors. The genetic and molecular drivers of this Malignant Transformation (MT) are poorly understood, and predicting whether a patient will undergo MT is an unmet challenge of high clinical relevance. To stratify patients b...

A Generative Virtual Tissue Model Enables Computational Design of Therapeutic Perturbation Strategies

Broadly, CIFM shows how generative artificial intelligence methods can be applied to model emergent behavior in highly interacting biological systems, yielding new approaches to fundamental understanding of tissue behavior as well as large-scale therapeutic design.