Modeling Dynamics, Cell Type Specificity, and Perturbations in Gene Regulatory Networks
Abstract
Gene regulatory networks (GRNs) define the regulatory relationships among molecules such as transcription factors, chromatin remodelers, and target genes. GRNs play a critical role in diverse biological processes, including development, disease manifestation, and evolution. However, fully characterizing these networks across multiple cell types and states remains a significant challenge. Recent advances in single-cell omics have dramatically enhanced our ability to measure biological systems at unprecedented resolution. These technologies have opened new avenues for computational methods to infer GRNs, offering deeper insights into cell type-specific mechanisms, causality, and dynamic regulatory processes. This review summarizes the current state of GRN inference from single cell omic datasets, with a particular focus on dynamics and perturbations, and outlines key open challenges that must be addressed to advance the field.
Cite
@article{arxiv.2602.18854,
title = {Modeling Dynamics, Cell Type Specificity, and Perturbations in Gene Regulatory Networks},
author = {Junha Shin and Spencer Halberg-Spencer and Yuda Liu and Suvojit Hazra and Erika Da-Inn Lee and Sushmita Roy},
journal= {arXiv preprint arXiv:2602.18854},
year = {2026}
}
Comments
30 pages, 4 figures, This article is scheduled to appear in the Annual Review of Genomics and Human Genetics