62 citations · 93 across the 11 of their papers we have counts for
5 papers · 1 filter
eGFRD in all dimensions
Thomas R. Sokolowski, Joris Paijmans, Laurens Bossen +7
Biochemical reactions typically occur at low copy numbers, but at once in crowded and diverse environments. Space and stochasticity therefore play an essential role in biochemical…
Spatial-Stochastic Simulation of Reaction-Diffusion Systems
Thomas R. Sokolowski, Pieter Rein ten Wolde
Biochemical networks play a crucial role in biological systems, implementing a broad range of vital functions. They normally operate at low copy numbers and in spatial settings, bu…
Extending the dynamic range of transcription factor action by translational regulation
Thomas R. Sokolowski, Aleksandra M. Walczak, William Bialek +1
A crucial step in the regulation of gene expression is binding of transcription factor (TF) proteins to regulatory sites along the DNA. But transcription factors act at nanomolar c…
Optimizing information flow in small genetic networks. IV. Spatial coupling
Thomas R. Sokolowski, Gašper Tkačik
We typically think of cells as responding to external signals independently by regulating their gene expression levels, yet they often locally exchange information and coordinate.…
Mutual Repression enhances the Steepness and Precision of Gene Expression Boundaries
Thomas R. Sokolowski, Thorsten Erdmann, Pieter Rein ten Wolde
Embryonic development is driven by spatial patterns of gene expression that determine the fate of each cell in the embryo. While gene expression is often highly erratic, embryonic…