61 citations · 99 across the 12 of their papers we have counts for
13 papers
Coclique level structure for stochastic chemical reaction networks
Simone Bruno, Yi Fu, Felipe A. Campos +2
Continuous time Markov chains are commonly used as models for the stochastic behavior of chemical reaction networks. More precisely, these Stochastic Chemical Reaction Networks (SC…
Analysis of singularly perturbed stochastic chemical reaction networks motivated by applications to epigenetic cell memory
Simone Bruno, Felipe A. Campos, Yi Fu +2
Epigenetic cell memory, the inheritance of gene expression patterns across subsequent cell divisions, is a critical property of multi-cellular organisms. In recent work [10], a sub…
Competition for binding targets results in paradoxical effects for simultaneous activator and repressor action -- Extended Version
M. Ali Al-Radhawi, Krishna Manoj, Dhruv D. Jatkar +3
In the context of epigenetic transformations in cancer metastasis, a puzzling effect was recently discovered, in which the elimination (knock-out) of an activating regulatory eleme…
A Stein's Method Approach to the Linear Noise Approximation for Stationary Distributions of Chemical Reaction Networks
Theodore W. Grunberg, Domitilla Del Vecchio
Stochastic Chemical Reaction Networks are continuous time Markov chain models that describe the time evolution of the molecular counts of species interacting stochastically via dis…
Comparison Theorems for Stochastic Chemical Reaction Networks
Felipe A. Campos, Simone Bruno, Yi Fu +2
Continuous-time Markov chains are frequently used as stochastic models for chemical reaction networks, especially in the growing field of systems biology. A fundamental problem for…
Identifiability of Chemical Reaction Networks with Intrinsic and Extrinsic Noise from Stationary Distributions
Theodore W. Grunberg, Domitilla Del Vecchio
Many biological systems can be modeled as a chemical reaction network with unknown parameters. Data available to identify these parameters are often in the form of a stationary dis…
Robustness of networked systems to unintended interactions with application to engineered genetic circuits
Yili Qian, Domitilla Del Vecchio
A networked dynamical system is composed of subsystems interconnected through prescribed interactions. In many engineering applications, however, one subsystem can also affect othe…
Robust Moment Closure Method for the Chemical Master Equation
Mohammad Naghnaeian, Domitilla Del Vecchio
The Chemical Master Equation (CME) is used to stochastically model biochemical reaction networks, under the Markovian assumption. The low-order statistical moments induced by the C…
Multi-modality in gene regulatory networks with slow promoter kinetics
M. Ali Al-Radhawi, Domitilla Del Vecchio, Eduardo D. Sontag
Phenotypical variability in the absence of genetic variation often reflects complex energetic landscapes associated with underlying gene regulatory networks (GRNs). In this view, d…
Safety Verification and Control for Collision Avoidance at Road Intersections
Heejin Ahn, Domitilla Del Vecchio
This paper presents the design of a supervisory algorithm that monitors safety at road intersections and overrides drivers with a safe input when necessary. The design of the super…
Model order reduction for Linear Noise Approximation using time-scale separation (Extended Version)
Narmada Herath, Domitilla Del Vecchio
In this paper, we focus on model reduction of biomolecular systems with multiple time-scales, modeled using the Linear Noise Approximation. Considering systems where the Linear Noi…
Robust Supervisors for Intersection Collision Avoidance in the Presence of Uncontrolled Vehicles
Heejin Ahn, Andrea Rizzi, Alessandro Colombo +1
We present the design and validation of a centralized controller, called a supervisor, for collision avoidance of multiple human-driven vehicles at a road intersection, considering…
Semi-autonomous Intersection Collision Avoidance through Job-shop Scheduling
Heejin Ahn, Domitilla Del Vecchio
In this paper, we design a supervisor to prevent vehicle collisions at intersections. An intersection is modeled as an area containing multiple conflict points where vehicle paths…