17 citations · 51 across the 13 of their papers we have counts for
14 papers
A Nonlinear Delay Model for Metabolic Oscillations in Yeast Cells
Max M. Chumley, Firas A. Khasawneh, Andreas Otto +1
We introduce two time-delay models of metabolic oscillations in yeast cells. Our model tests a hypothesis that the oscillations occur as multiple pathways share a limited resource…
The Lack of Convexity of the Relevance-Compression Function
Albert E Parker, Tomas Gedeon, Alexander Dimitrov
In this paper we investigate the convexity of the relevance-compression function for the Information Bottleneck and the Information Distortion problems. This curve is an analog of…
Extremal Event Graphs: A (Stable) Tool for Analyzing Noisy Time Series Data
Robin Belton, Bree Cummins, Brittany Terese Fasy +1
Local maxima and minima, or extremal events, in experimental time series can be used as a coarse summary to characterize data. However, the discrete sampling in recording experimen…
Extending combinatorial regulatory network modeling to include activity control and decay modulation
Bree Cummins, Marcio Gameiro, Tomas Gedeon +3
Understanding how the structure of within-system interactions affects the dynamics of the system is important in many areas of science. We extend a network dynamics modeling platfo…
Genetic Networks Encode Secrets of Their Past
Peter Crawford-Kahrl, Robert R. Nerem, Bree Cummins +1
Research shows that gene duplication followed by either repurposing or removal of duplicated genes is an important contributor to evolution of gene and protein interaction networks…
Operon Dynamics with State Dependent Transcription and/or Translation Delays
Tomas Gedeon, Antony R. Humphries, Michael C. Mackey +3
Transcription and translation retrieve and operationalize gene encoded information in cells. These processes are not instantaneous and incur significant delays. In this paper we st…