A mathematical model of mechanotransduction reveals how mechanical memory regulates mesenchymal stem cell fate decisions. - Tao Peng; Linan Liu; Adam L. Maclean; Chi Wut Wong; Weian Zhao; Qing Nie (BMC Syst. Biol., 2017)

scEpath: energy landscape-based inference of transition probabilities and cellular trajectories from single-cell transcriptomic data. - Suoqin Jin; Adam L. Maclean; Tao Peng; Qing Nie (Bioinform., 2018)

RVAgene: generative modeling of gene expression time series data. - Raktim Mitra; Adam L. Maclean (Bioinform., 2021)

Data-driven model discovery and model selection for noisy biological systems. - Xiaojun Wu; Meilu McDermott; Adam L. Maclean (PLoS Comput. Biol., 2025)