A Hybrid Stochastic Model of the Budding Yeast Cell Cycle Control Mechanism. - Shuo Wang; Mansooreh Ahmadian; Minghan Chen; John J. Tyson; Young Cao (BCB, 2016)

Hybrid ODE/SSA Model of the Budding Yeast Cell Cycle Control Mechanism with Mutant Case Study. - Mansooreh Ahmadian; Shuo Wang; John J. Tyson; Young Cao (BCB, 2017)

A stochastic model of size control in the budding yeast cell cycle. - Mansooreh Ahmadian; John J. Tyson; Yang Cao 001 (BMC Bioinform., 2019)

Hybrid Modeling and Simulation of Stochastic Effects on Biochemical Regulatory Networks. - Mansooreh Ahmadian (2020)

A platform-independent framework for phenotyping of multiplex tissue imaging data. - Mansooreh Ahmadian; Christian Rickert; Angela Minic; Julia Wrobel; Benjamin G. Bitler; Fuyong Xing; Michael Angelo; Elena W. Y. Hsieh; Debashis Ghosh; Kimberly R. Jordan (PLoS Comput. Biol., 2023)

FunSpace: A functional and spatial analytic approach to cell imaging data using entropy measures. - Thao Vu; Souvik Seal; Tusharkanti Ghosh; Mansooreh Ahmadian; Julia Wrobel; Debashis Ghosh (PLoS Comput. Biol., 2023)

Annotating publicly-available samples and studies using interpretable modeling of unstructured metadata. - Hao Yuan; Parker Hicks; Mansooreh Ahmadian; Kayla A. Johnson; Lydia Valtadoros; Arjun Krishnan (Briefings Bioinform., 2024)