142 citations · 523 across the 30 of their papers we have counts for
9 papers · 1 filter
Convergence of regularized particle filters for stochastic reaction networks
Zhou Fang, Ankit Gupta, Mustafa Khammash
Filtering for stochastic reaction networks (SRNs) is an important problem in systems/synthetic biology aiming to estimate the state of unobserved chemical species. A good solution…
Stochastic filtering for multiscale stochastic reaction networks based on hybrid approximations
Zhou Fang, Ankit Gupta, Mustafa Khammash
In the past few decades, the development of fluorescent technologies and microscopic techniques has greatly improved scientists' ability to observe real-time single-cell activities…
A finite state projection method for steady-state sensitivity analysis of stochastic reaction networks
Patrik Dürrenberger, Ankit Gupta, Mustafa Khammash
Consider the standard stochastic reaction network model where the dynamics is given by a continuous-time Markov chain over a discrete lattice. For such models, estimation of parame…
Dynamic disorder in simple enzymatic reactions induces stochastic amplification of substrate
Ankit Gupta, Andreas Milias-Argeitis, Mustafa Khammash
A growing amount of evidence points to the fact that many enzymes exhibit fluctuations in their catalytic activity, which are associated with conformational changes on a broad rang…
A finite state projection algorithm for the stationary solution of the chemical master equation
Ankit Gupta, Jan Mikelson, Mustafa Khammash
The chemical master equation (CME) is frequently used in systems biology to quantify the effects of stochastic fluctuations that arise due to biomolecular species with low copy num…
A parallelizable sampling method for parameter inference of large biochemical reaction models
Jan Mikelson, Mustafa Khammash
The development of mechanistic models of biological systems is a central part of Systems Biology. One major task in developing these models is the inference of the correct model pa…