Agent-based simulation for software project planning. - David Joslin 002; William Poole (WSC, 2005)

Combining dependent P-values with an empirical adaptation of Brown's method. - William Poole; David L. Gibbs; Ilya Shmulevich; Brady Bernard; Theo A. Knijnenburg (Bioinform., 2016)

Chemical Boltzmann Machines. - William Poole; Andrés Ortiz-Muñoz; Abhishek Behera; Nick S. Jones; Thomas E. Ouldridge; Erik Winfree; Manoj Gopalkrishnan (DNA, 2017)

Multiscale mutation clustering algorithm identifies pan-cancer mutational clusters associated with pathway-level changes in gene expression. - William Poole; Kalle Leinonen; Ilya Shmulevich; Theo A. Knijnenburg; Brady Bernard (PLoS Comput. Biol., 2017)

Vivarium: an interface and engine for integrative multiscale modeling in computational biology. - Eran Agmon; Ryan K. Spangler; Christopher J. Skalnik; William Poole; Shayn M. Peirce; Jerry H. Morrison; Markus W. Covert (Bioinform., 2022)

Detailed Balanced Chemical Reaction Networks as Generalized Boltzmann Machines. - William Poole; Thomas E. Ouldridge; Manoj Gopalkrishnan; Erik Winfree (CoRR, 2022)

In vitro convolutional neural networks. - William Poole (Nat. Mach. Intell., 2022)

BioCRNpyler: Compiling chemical reaction networks from biomolecular parts in diverse contexts. - William Poole; Ayush Pandey; Andrey Shur; Zoltán A. Tuza; Richard M. Murray (PLoS Comput. Biol., 2022)

Autonomous Learning of Generative Models with Chemical Reaction Network Ensembles. - William Poole; Thomas E. Ouldridge; Manoj Gopalkrishnan (CoRR, 2023)

Fast and flexible simulation and parameter estimation for synthetic biology using bioscrape. - Ayush Pandey; William Poole; Anandh Swaminathan; Victoria Hsiao; Richard M. Murray (Zenodo, 2023)

Fast and flexible simulation and parameter estimation for synthetic biology using bioscrape. - Ayush Pandey; William Poole; Anandh Swaminathan; Victoria Hsiao; Richard M. Murray (J. Open Source Softw., 2023)

Pathspace Kalman Filters with Dynamic Process Uncertainty for Analyzing Time-course Data. - Chaitra Agrahar; William Poole; Simone Bianco 002; Hana El-Samad (CoRR, 2024)