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Probability Flow Matching learns biophysical gene regulation models from single-cell data

Researchers have introduced Probability Flow Matching (PFM), a new framework designed to learn biophysically consistent stochastic processes from time-resolved single-cell measurements. This method aims to improve the mechanistic interpretability and generalization of gene-regulatory dynamics inference, which has been a limitation of current approaches. PFM was applied to hematopoiesis datasets, demonstrating its ability to accurately capture lineage transitions and gene perturbation responses, and also to infer cellular proliferation and death dynamics. AI

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IMPACT Provides a new framework for integrating mechanistic modeling with single-cell omics data.

RANK_REASON Academic paper introducing a new method for biological modeling.

Read on arXiv cs.LG →

COVERAGE [2]

  1. arXiv cs.LG TIER_1 · Suryanarayana Maddu, Victor Chard\`es, Michael J. Shelley ·

    Learning biophysical models of gene regulation with probability flow matching

    arXiv:2604.25062v1 Announce Type: cross Abstract: Cellular differentiation is governed by gene regulatory networks, the high-dimensional stochastic biochemical systems that determine the transcriptional landscape and mediate cellular responses to signals and perturbations. Althou…

  2. arXiv cs.LG TIER_1 · Michael J. Shelley ·

    Learning biophysical models of gene regulation with probability flow matching

    Cellular differentiation is governed by gene regulatory networks, the high-dimensional stochastic biochemical systems that determine the transcriptional landscape and mediate cellular responses to signals and perturbations. Although single-cell RNA sequencing provides quantitativ…