Supravat Dey

Molecular Sequestration Enhances Precision in Timing of Intracellular Events

The paper investigates how decoys affect the timing of intracellular events by analyzing first passage time statistics under different binding conditions.

Stochastic comparison of synchronization in activator- and repressor-based coupled gene oscillators

This study compares synchronization in activator- and repressor-based coupled gene oscillators, showing that repressor-based models achieve robust in-phase synchronization while activator-based models require coupling delays for anti-phase synchronization.

Role of periodic forcing on the stochastic dynamics of a biomolecular clock

This study examines noise in a biomolecular clock under periodic forcing using two methods, showing the linear noise approximation works well with damping or external signals but not with sustained oscillations.

Role of intercellular coupling and delay on the synchronization of genetic oscillators

This study investigates how intercellular coupling and delay affect synchronization of genetic oscillators, finding that high coupling strength can disrupt oscillations and stochasticity affects in-phase oscillations more than anti-phase ones.

The role of incoherent feedforward circuits in regulating precision of event timing

The paper investigates how an incoherent feedforward circuit involving holin and antiholin proteins regulates the precision of lysis timing in bacteriophage lambda.

Noise propagation in gene expression in the presence of decoys

The paper investigates how decoy sites affect gene expression noise in a transcription factor and its downstream target, showing noise reduction with decoys but counterintuitive noise increases in target proteins under nonlinear responses.

Enhancement of gene expression noise due to nonspecific transcription factor binding

The paper analyzes how nonspecific transcription factor binding sites affect gene expression noise, showing that decoy sites can either amplify or reduce noise depending on their binding affinity and TF stability.

An approximate derivate-based controller for regulating gene expression

This study analyzes proportional and derivative-based feedback controllers to suppress protein count fluctuations in gene expression, showing their effectiveness and trade-offs in noise suppression and sensitivity.