5 citations · 5 across the 4 of their papers we have counts for
5 papers · 1 filter
Equilibria and their Stability in Networks with Steep Sigmoidal Nonlinearities
William Duncan, Tomas Gedeon, Hiroshi Kokubu +2
In this paper we investigate equilibria of continuous differential equation models of network dynamics. The motivation comes from gene regulatory networks where each directed edge…
Joint Realizability of Monotone Boolean functions
Peter Crawford-Kahrl, Bree Cummins, Tomas Gedeon
The study of monotone Boolean functions (MBFs) has a long history. We explore a connection between MBFs and ordinary differential equation (ODE) models of gene regulation, and, in…
Rational design of complex phenotype via network models
Marcio Gameiro, Tomas Gedeon, Shane Kepley +1
We demonstrate a modeling and computational framework that allows for rapid screening of thousands of potential network designs for particular dynamic behavior. To illustrate this…
Comparison of two combinatorial models of global network dynamics
Peter Crawford-Kahrl, Bree Cummins, Tomas Gedeon
Modeling the dynamics of biological networks introduces many challenges, among them the lack of first principle models, the size of the networks, and difficulties with parameteriza…
Model rejection and parameter reduction via time series
Bree Cummins, Tomas Gedeon, Shaun Harker +1
We show how a graph algorithm for finding matching labeled paths in pairs of labeled directed graphs can be used to perform model validation for a class of dynamical systems includ…