Transcriptional Regulation by Competing Transcription Factor Modules. - Rutger Hermsen; Sander Tans; Pieter Rein ten Wolde (PLoS Comput. Biol., 2006)

Enzyme Localization Can Drastically Affect Signal Amplification in Signal Transduction Pathways. - Siebe B. van Albada; Pieter Rein ten Wolde (PLoS Comput. Biol., 2007)

Fundamental Limits to Position Determination by Concentration Gradients. - Filipe Tostevin; Pieter Rein ten Wolde; Martin Howard (PLoS Comput. Biol., 2007)

Regulatory Control and the Costs and Benefits of Biochemical Noise. - Sorin Tanase-Nicola; Pieter Rein ten Wolde (PLoS Comput. Biol., 2008)

Differential Affinity and Catalytic Activity of CheZ in E. coli Chemotaxis. - Siebe B. van Albada; Pieter Rein ten Wolde (PLoS Comput. Biol., 2009)

Combinatorial Gene Regulation Using Auto-Regulation. - Rutger Hermsen; Bas Ursem; Pieter Rein ten Wolde (PLoS Comput. Biol., 2010)

Mutual Repression Enhances the Steepness and Precision of Gene Expression Boundaries. - Thomas R. Sokolowski; Thorsten Erdmann; Pieter Rein ten Wolde (PLoS Comput. Biol., 2012)

A thermodynamically consistent model of the post-translational Kai circadian clock. - Joris Paijmans; David K. Lubensky; Pieter Rein ten Wolde (PLoS Comput. Biol., 2017)

Path Weight Sampling: Exact Monte Carlo Computation of the Mutual Information between Stochastic Trajectories. - Manuel Reinhardt; Gasper Tkacik; Pieter Rein ten Wolde (CoRR, 2022)

Exact computation of Transfer Entropy with Path Weight Sampling. - Avishek Das; Pieter Rein ten Wolde (CoRR, 2024)

Stable developmental patterns of gene expression without morphogen gradients. - Maciej Majka; Nils B. Becker; Pieter Rein ten Wolde; Marcin Zagórski; Thomas R. Sokolowski (PLoS Comput. Biol., 2024)

Intuitive dissection of the Gaussian information bottleneck method with an application to optimal prediction. - Vahe Galstyan; Age Tjalma; Pieter Rein ten Wolde (CoRR, 2025)