72 citations · 249 across the 12 of their papers we have counts for
6 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…
Optimal Prediction by Cellular Signaling Networks
Nils B. Becker, Andrew Mugler, Pieter Rein ten Wolde
Living cells can enhance their fitness by anticipating environmental change. We study how accurately linear signaling networks in cells can predict future signals. We find that max…
Fundamental Limits to Cellular Sensing
Pieter Rein ten Wolde, Nils B. Becker, Thomas E. Ouldridge +1
In recent years experiments have demonstrated that living cells can measure low chemical concentrations with high precision, and much progress has been made in understanding what s…
Prediction and Dissipation in Biochemical Sensing
Nils B. Becker, Andrew Mugler, Pieter Rein ten Wolde
Cells sense and predict their environment via energy-dissipating pathways. However, it is unclear whether dissipation helps or harms prediction. Here we study dissipation and predi…
Rare switching events in non-stationary systems
Nils B. Becker, Pieter Rein ten Wolde
Physical systems with many degrees of freedom can often be understood in terms of transitions between a small number of metastable states. For time-homogeneous systems with short-t…
Non-Stationary Forward Flux Sampling
Nils B. Becker, Rosalind J. Allen, Pieter Rein ten Wolde
We present a new method, Non-Stationary Forward Flux Sampling, that allows efficient simulation of rare events in both stationary and non-stationary stochastic systems. The method…