ODE parameter inference using adaptive gradient matching with Gaussian processes

Parameter inference in mechanistic models based on systems of coupled differential equa- tions is a topical yet computationally chal- lenging problem, due to the need to fol- low each parameter adaptation with a nu- merical integration of the differential equa- tions. Techniques based on gradient match- ing, which aim to minimize the discrepancy between the slope of a data interpolant and the derivatives predicted from the differen- tial equations, offer a computationally ap- pealing shortcut to the inference problem. The present paper discusses a method based on nonparametric Bayesian statistics with Gaussian processes due to Calderhead et al. (2008), and shows how inference in this model can be substantially improved by consistently inferring all parameters from the joint dis- tribution. We demonstrate the efficiency of our adaptive gradient matching technique on three benchmark systems, and perform a de- tailed comparison with the method in Calder- head et al. (2008) and the explicit ODE inte- gration approach, both in terms of parameter inference accuracy and in terms of computa- tional efficiency

Development of polymer network of phenolic and epoxies resins mixed with linseed oil: pilot study

Epoxy resin was mixed with phenolic resins in different percentages by weight. Composite 40/60 means the proportion by weight of epoxy resin is 40 percent. It was found that only composites 50/50 and 40/60 could be cured in ambient conditions. Dynamic mechanical analysis showed that only these two composites form interpenetrating polymer network. The addition of linseed oil to the two resins results also in the formation of interpenetrating network irrespective of proportion by weight of the resins; the mechanical properties will only be better when the percentage by weight of epoxy resin is higher; the aim of reducing cost and at the same time maintaining the mechanical properties cannot be fully achieved because epoxy resin is much more expensive than its counterpart

Pyrotechnic shock at the orbiter/external tank forward attachment

During the initial certification test of the forward structural attachment of the space shuttle orbiter to the external tank, pyrotechnic shock from actuation of the separation device resulted in structural failure of the thermal protection tiles surrounding the attachment. Because of the high shock associated with the separation bolt, the development of alternative low shock separation designs was initiated. Two concepts that incorporate a 5.08 centimeter frangible nut as the release device were developed and tested

A Feynman-Kac Formula for Anticommuting Brownian Motion

Motivated by application to quantum physics, anticommuting analogues of Wiener measure and Brownian motion are constructed. The corresponding Ito integrals are defined and the existence and uniqueness of solutions to a class of stochastic differential equations is established. This machinery is used to provide a Feynman-Kac formula for a class of Hamiltonians. Several specific examples are considered.Comment: 21 page

Higher-order associative processing in Hermissenda suggests multiple sites of neuronal modulation.

Two important features of modern accounts of associative learning are (1) the capacity for contextual stimuli to serve as a signal for an unconditioned stimulus (US) and (2) the capacity for a previously conditioned (excitatory) stimulus to block learning about a redundant stimulus when both stimuli serve as a signal for the same US. Here, we examined the process of blocking, thought by some to reflect a cognitive aspect of classical conditioning, and its underlying mechanisms in the marine mollusc Hermissenda. In two behavioral experiments, a context defined by chemosensory stimuli was made excitatory by presenting unsignalled USs (rotation) in that context. The excitatory context subsequently blocked overt learning about a discrete conditioned stimulus (CS; light) paired with the US in that context. In a third experiment, the excitability of the B photoreceptors in the Hermissenda eye, which typically increases following light-rotation pairings, was examined in behaviorally blocked animals, as well as in animals that had acquired a normal CS-US association or animals that had been exposed to the CS and US unpaired. Both the behaviorally blocked and the normal learning groups exhibited increases in neuronal excitability relative to unpaired animals. However, light-induced multiunit activity in pedal nerves was suppressed following normal conditioning but not in blocked or unpaired control animals, suggesting that the expression of blocking is mediated by neuronal modifications not directly reflected in B-cell excitability, possibly within an extensive network of central light-responsive interneurons

Parameter inference in mechanistic models of cellular regulation and signalling pathways using gradient matching

A challenging problem in systems biology is parameter inference in mechanistic models of signalling pathways. In the present article, we investigate an approach based on gradient matching and nonparametric Bayesian modelling with Gaussian processes. We evaluate the method on two biological systems, related to the regulation of PIF4/5 in Arabidopsis thaliana, and the JAK/STAT signal transduction pathway