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Full-Text Articles in Physical Sciences and Mathematics
Chemchains: A Platform For Simulation And Analysis Of Biochemical Networks Aimed To Laboratory Scientists, Tomáš Helikar, Jim A. Rogers
Chemchains: A Platform For Simulation And Analysis Of Biochemical Networks Aimed To Laboratory Scientists, Tomáš Helikar, Jim A. Rogers
Mathematics Faculty Publications
Background: New mathematical models of complex biological structures and computer simulation software allow modelers to simulate and analyze biochemical systems in silico and form mathematical predictions. Due to this potential predictive ability, the use of these models and software has the possibility to compliment laboratory investigations and help refine, or even develop, new hypotheses. However, the existing mathematical modeling techniques and simulation tools are often difficult to use by laboratory biologists without training in high-level mathematics, limiting their use to trained modelers. Results: We have developed a Boolean network-based simulation and analysis software tool, ChemChains, which combines the advantages of …
On The Sensitivity To Noise Of A Boolean Function, Mihaela Teodora Matache, Valentin Matache
On The Sensitivity To Noise Of A Boolean Function, Mihaela Teodora Matache, Valentin Matache
Mathematics Faculty Publications
In this paper we generate upper and lower bounds for the sensitivity to noise of a Boolean function using relaxed assumptions on input choices and noise. The robustness of a Boolean network to noisy inputs is related to the average sensitivity of that function. The average sensitivity measures how sensitive to changes in the inputs the output of the function is. The average sensitivity of Boolean functions can indicate whether a specific random Boolean network constructed from those functions is ordered, chaotic, or in critical phase. We give an exact formula relating the sensitivity to noise and the average sensitivity …