Water and the Biology of Prions and Plaques

This is an attempt to account for the insolubility and/or aggregation of prions and plaques in terms of a model of water consisting of an equilibrium between high 
density and low density microdomains. Hydrophobic molecules, including proteins, 
accumulate selectively into stable populations, enriched in high density water, at 
charged sites on biopolymers. In enriched high density water, proteins are probably 
partially unfolded and may precipitate out when released. All extracellular matrices 
contain such charged polymers. Prions, which have been shown to accumulate in soils 
and clays containing silicates and aluminates also probably accumulate in 
extracellular matrices. 
 
Release of proteins follows hydrolysis of the charged groups by highly reactive high 
density water. This is normally a slow process but is greatly accelerated by urea. 
Plaques may form with age and disease because of accumulation of urea and, perhaps, 
glucose in the blood. This favours precipitation of proteins emerging from matrices, 
rather than refolding and solution. Dialysis should, therefore, interfere with plaque 
formation and impede the development of some age-related diseases

A Hamiltonian treatment of stimulated Brillouin scattering in nanoscale integrated waveguides

We present a multimode Hamiltonian formulation for the problem of opto-acoustic interactions in optical waveguides. We establish a Hamiltonian representation of the acoustic field and then introduce a full system with a simple opto-acoustic coupling that includes both photoelastic/electrostrictive and radiation pressure/moving boundary effects. The Heisenberg equations of motion are used to obtain coupled mode equations for quantized envelope operators for the optical and acoustic fields. We show that the coupling coefficients obtained coincide with those established earlier, but our formalism provides a much simpler demonstration of the connection between radiation pressure and moving boundary effects than in previous work [C. Wolff et al, Physical Review A 92, 013836 (2015)].Comment: 39 pages: 20 pages for main article + 19 pages supplementary information; 3 figure

Multiple output production with undesirable outputs : an application to nitrogen surplus in agriculture

Many production processes yield both good outputs and undesirable ones (e.g., pollutants). In this article we develop a generalization of a stochastic frontier model that is appropriate for such technologies. We discuss efficiency analysis and, in particular, define technical and environmental efficiency in the context of our model. We develop methods for carrying out Bayesian inference and apply them to a panel data set of Dutch dairy farms, where excess nitrogen production constitutes an important environmental problem

Bayesian modelling of skewness and kurtosis with two-piece scale and shape distributions

We formalise and generalise the definition of the family of univariate double two--piece distributions, obtained by using a density--based transformation of unimodal symmetric continuous distributions with a shape parameter. The resulting distributions contain five interpretable parameters that control the mode, as well as the scale and shape in each direction. Four-parameter subfamilies of this class of distributions that capture different types of asymmetry are discussed. We propose interpretable scale and location-invariant benchmark priors and derive conditions for the propriety of the corresponding posterior distribution. The prior structures used allow for meaningful comparisons through Bayes factors within flexible families of distributions. These distributions are applied to data from finance, internet traffic and medicine, comparing them with appropriate competitors

Table builder problem - confidentiality for linked tables

The aim of this project is to investigate solutions to the problem of improving access to detailed survey data, while ensuring no person or organisation is likely to be identified, or otherwise put at risk of having their data disclosed, and to link general findings back to the ABS Table Builder problem. We focussed on making contributions in two main areas, namely: 1. Identification of sensitive cells in a table, 2. Maximizing data utility and minimising information loss - ensuring the table provides useful information

Manual measurement of retinal bifurcation features

This paper introduces a new computerized tool for accurate manual measurement of features of retinal bifurcation geometry, designed for use in investigating correlations between measurement features and clinical conditions. The tool uses user-placed rectangles to measure the vessel width, and lines placed along vessel center lines to measure the angles. An analysis is presented of measurements taken from 435 bifurcations. These are compared with theoretical predictions based on optimality principles presented in the literature. The new tool shows better agreement with the theoretical predictions than a simpler manual method published in the literature, but there remains a significant discrepancy between current theory and measured geometry