D-SPIN constructs gene regulatory network models from multiplexed scRNA-seq data revealing organizing principles of cellular perturbation response.

ABSTRACT: Gene regulatory networks within cells modulate the expression of the genome in response to signals and changing environmental conditions. Reconstructions of gene regulatory networks can reveal the information processing and control principles used by cells to maintain homeostasis and execute cell-state transitions. Here, we introduce a computational framework, D-SPIN, that generates quantitative models of gene regulatory networks from single-cell mRNA-seq datasets collected across thousands of distinct perturbation conditions. D-SPIN constructs probabilistic models of regulatory interactions between genes or gene-expression programs to fit the cell state distributions under different perturbations. Using large Perturb-seq and drug-response datasets, we demonstrate that D-SPIN models reveal

SUBMITTER: Jiang J 

PROVIDER: S-EPMC10153191 | biostudies-literature | 2025 May

REPOSITORIES: biostudies-literature