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Asymmetry between Activators and Deactivators in Functional Protein Networks
Ammar Tareen, Ned S. Wingreen, Ranjan Mukhopadhyay
Are "turn-on" and "turn-off" functions in protein-protein interaction networks exact opposites of each other? To answer this question, we implement a minimal model for the evolutio…
Hidden long evolutionary memory in a model biochemical network
Md. Zulfikar Ali, Ned S. Wingreen, Ranjan Mukhopadhyay
We introduce a minimal model for the evolution of functional protein-interaction networks using a sequence-based mutational algorithm, and apply the model to study neutral drift in…
Optimal census by quorum sensing
Thibaud Taillefumier, Ned S. Wingreen
Quorum sensing is the regulation of gene expression in response to changes in cell density. To measure their cell density, bacterial populations produce and detect diffusible molec…
Chemical sensing by nonequilibrium cooperative receptors
Monica Skoge, Sahin Naqvi, Yigal Meir +1
Cooperativity arising from local interactions in equilibrium receptor systems provides gain, but does not increase sensory performance, as measured by the signal-to-noise ratio (SN…
Dynamics of cooperativity in chemical sensing among cell-surface receptors
Monica Skoge, Yigal Meir, Ned S. Wingreen
Cooperative interactions among sensory receptors provide a general mechanism to increase the sensitivity of signal transduction. In particular, bacterial chemotaxis receptors inter…
Limits of sensing temporal concentration changes by single cells
Thierry Mora, Ned S. Wingreen
Berg and Purcell [Biophys. J. 20, 193 (1977)] calculated how the accuracy of concentration sensing by single-celled organisms is limited by noise from the small number of counted m…