Journal of Theoretical Biology
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Journal of Theoretical Biology 359:IFC (2014)
Journal of Theoretical Biology 354:IFC (2014)
Estimating vocal repertoire size is like collecting coupons: a theoretical framework with heterogeneity in signal abundance
We derived the precise expression for the expected number of distinct signal types observed for a fixed sampling effort: a variation of what is known in the statistical literature as the “Coupon Collector's problem”. We used empirical data from three species (northern mockingbird, Carolina chickadee...
A consistent estimator of the evolutionary rate
We consider a branching particle system where particles reproduce according to the pure birth Yule process with the birth rate λ, conditioned on the observed number of particles to be equal to n. Particles are assumed to move independently on the real line according to the Brownian motion with the l...
Neurons from the adult human dentate nucleus: Neural networks in the neuron classification.
Topological (central vs. border neuron type) and morphological classification of adult human dentate nucleus neurons according to their quantified histomorphological properties using neural networks on real and virtual neuron samples. In the real sample 53.1% and 14.1% of central and border neurons,...
Nonlinear dynamics of the CAM circadian rhythm in response to environmental forcing.
We explore the qualitative response of the system and the expected carbon assimilation under constant and periodically forced environmental conditions. The model results show how the diurnal evolution of these variables entrains the CAM cycle with prevailing environmental conditions. While constant...
Discrimination of acidic and alkaline enzyme using Chou's pseudo amino acid composition in conjunction with probabilistic neural network mod...
We have developed a robust, accurate and high throughput computational model using two discrete sample representation methods Pseudo amino acid composition (PseAAC) and split amino acid composition. Various classification algorithms including probabilistic neural network (PNN), K-nearest neighbor, d...
Analysis of an epidemic model with awareness decay on regular random networks.
We interpret the dynamics of the system in this region and prove that the existence of bifurcation for this second epidemic threshold crucially depends on the absence of awareness decay. We show that the continuum of equilibria that characterizes the slow die-out dynamics collapses into a unique equ...
Maximizing yields of virulent phage: the T4/Escherichia coli system as a test case.
A hybrid mathematical model was devised to obtain optimal values for bacterial doubling time and initial phage/bacteria multiplicity of infection for the purpose of reaching the highest possible phage titers in steady-state exponentially growing cultures. The computational model consists of an initi...
Nonlinearity in cytoplasm viscosity can generate an essential symmetry breaking in cellular behaviors.
We investigated how the nonlinearity infers the cellular behaviors and whether nonlinearity-specific behaviors exist. We modeled the developed plasmodium of the slime mold Physarum polycephalum as a network of branching tubes and examined the linear and nonlinear viscous cytoplasm flows in the tubes...