Varun B. Kothamachu

TL;DR: The new portal broadens the scope of models accepted in BioModels and supports collaborative model curation which is crucial for model reproducibility and sharing and the potential benefit they offer to the users over the previous system is discussed.

TL;DR: A mathematical framework for analysing microbial systems with multi-domain HK receptors known as hybrid and unorthodox HKs is developed and it is found that such systems, when sensing distinct signals, can readily implement Boolean logic functions on these signals.

TL;DR: In this article, the authors considered an inducible promoter in the yeast S. cerevisiae and compared the performance of standard (e.g., step inputs) and optimally designed experiments for parameter inference.

TL;DR: These findings show that the one HK-two RR motif allows bacteria and yeast to implement tunable switch-like signal processing and provides an ideal basis for developing threshold devices for synthetic biology applications.

TL;DR: An analytical expression is derived that relates the shape of the signal- response relationship in a relay to the kinetic rates of forward, reverse phosphorylation and hydrolysis reactions, and it is found that a specific topology also observed in nature can satisfy these conditions in such a way to allow plasticity among hyperbolic and sigmoidal signal-response relationships.