Fast computation by block permanents of cumulative distribution functions of order statistics from several populations

The joint cumulative distribution function for order statistics arising from several different populations is given in terms of the distribution function of the populations. The computational cost of the formula in the case of two populations is still exponential in the worst case, but it is a dramatic improvement compared to the general formula by Bapat and Beg. In the case when only the joint distribution function of a subset of the order statistics of fixed size is needed, the complexity is polynomial, for the case of two populations.Comment: 21 pages, 3 figure

Quantifying Timing Leaks and Cost Optimisation

We develop a new notion of security against timing attacks where the attacker is able to simultaneously observe the execution time of a program and the probability of the values of low variables. We then show how to measure the security of a program with respect to this notion via a computable estimate of the timing leakage and use this estimate for cost optimisation.Comment: 16 pages, 2 figures, 4 tables. A shorter version is included in the proceedings of ICICS'08 - 10th International Conference on Information and Communications Security, 20-22 October, 2008 Birmingham, U

Evaluation of a complex intervention (Engager) for prisoners with common mental health problems, near to and after release: study protocol for a randomised controlled trial.

INTRODUCTION: The 'Engager' programme is a 'through-the-gate' intervention designed to support prisoners with common mental health problems as they transition from prison back into the community. The trial will evaluate the clinical and cost-effectiveness of the Engager intervention. METHODS AND ANALYSIS: The study is a parallel two-group randomised controlled trial with 1:1 individual allocation to either: (a) the Engager intervention plus standard care (intervention group) or (b) standard care alone (control group) across two investigation centres (South West and North West of England). Two hundred and eighty prisoners meeting eligibility criteria will take part. Engager is a person-centred complex intervention delivered by practitioners and aimed at addressing offenders' mental health and social care needs. It comprises one-to-one support for participants prior to release from prison and for up to 20 weeks postrelease. The primary outcome is change in psychological distress measured by the Clinical Outcomes in Routine Evaluation-Outcome Measure at 6 months postrelease. Secondary outcomes include: assessment of subjective met/unmet need, drug and alcohol use, health-related quality of life and well-being-related quality of life measured at 3, 6 and 12 months postrelease; change in objective social domains, drug and alcohol dependence, service utilisation and perceived helpfulness of services and change in psychological constructs related to desistence at 6 and 12 months postrelease; and recidivism at 12 months postrelease. A process evaluation will assess fidelity of intervention delivery, test hypothesised mechanisms of action and look for unintended consequences. An economic evaluation will estimate the cost-effectiveness. ETHICS AND DISSEMINATION: This study has been approved by the Wales Research Ethics Committee 3 (ref: 15/WA/0314) and the National Offender Management Service (ref: 2015-283). Findings will be disseminated to commissioners, clinicians and service users via papers and presentations. TRIAL REGISTRATION NUMBER: ISRCTN11707331; Pre-results

Policy-making tool for optimization of transit priority lanes in urban network

Transit improvement is an effective way to relieve traffic congestion and decrease greenhouse gas emissions. Improvement can be in the form of new facilities or giving on-road priority to transit. Although construction of off-road mass transit is not always viable, giving priority to transit can be a low-cost alternative. A framework is introduced for optimization of bus priority at the network level. The framework identifies links on which a bus lane should be located. Allocation of a lane to transit vehicles would increase the utility of transit, although this can be a disadvantage to auto traffic. The approach balances the impact on all stakeholders. Automobile advocates would like to increase traffic road space, and the total travel time of users and total emissions of the network could be reduced by a stronger priority scheme. A bilevel optimization is applied that encompasses an objective function at the upper level and a mode choice, a traffic assignment, and a transit assignment model at the lower level. The proposed optimization helps transport authorities to quantify the outcomes of various strategies of transit priority. A detailed sensitivity analysis is carried out on the relative weight of each factor in the objective function. The proposed framework can also be applied in the context of high-occupancy-vehicle lanes and heavy-vehicle priority lanes

Genome-wide methylation analysis identifies genes silenced in non-seminoma cell lines

Silencing of genes by DNA methylation is a common phenomenon in many types of cancer. However, the genome wide effect of DNA methylation on gene expression has been analysed in relatively few cancers. Germ cell tumours (GCTs) are a complex group of malignancies. They are unique in developing from a pluripotent progenitor cell. Previous analyses have suggested that non-seminomas exhibit much higher levels of DNA methylation than seminomas. The genomic targets that are methylated, the extent to which this results in gene silencing and the identity of the silenced genes most likely to play a role in the tumours’ biology have not yet been established. In this study, genome-wide methylation and expression analysis of GCT cell lines was combined with gene expression data from primary tumours to address this question. Genome methylation was analysed using the Illumina infinium HumanMethylome450 bead chip system and gene expression was analysed using Affymetrix GeneChip Human Genome U133 Plus 2.0 arrays. Regulation by methylation was confirmed by demethylation using 5-aza-2-deoxycytidine and reverse transcription–quantitative PCR. Large differences in the level of methylation of the CpG islands of individual genes between tumour cell lines correlated well with differential gene expression. Treatment of non-seminoma cells with 5-aza-2-deoxycytidine verified that methylation of all genes tested played a role in their silencing in yolk sac tumour cells and many of these genes were also differentially expressed in primary tumours. Genes silenced by methylation in the various GCT cell lines were identified. Several pluripotency-associated genes were identified as a major functional group of silenced genes

Identifying leverage points to transition dysfunctional irrigation schemes towards complex adaptive systems

This article explores the value of Ostrom’s socio-ecological systems framework and Meadows’s leverage point hierarchy, as structured diagnostics, to define systemic problems and avoid approaches based on linear thinking. These frameworks were applied as an ex post analysis of an irrigation scheme in Zimbabwe, drawing on the scheme’s baseline condition and the intervention outcomes. Strong leverage points, particularly those driving feedback mechanisms and institutional design, interacted with other intervention points, initiating systemic change. This analysis suggests that dysfunctional schemes can be transitioned towards complex adaptive systems by using agricultural innovation platforms to identify systemic challenges and intervention points

A new model for root growth in soil with macropores

Abstract: Background and aimsThe use of standard dynamic root architecture models to simulate root growth in soil containing macropores failed to reproduce experimentally observed root growth patterns. We thus developed a new, more mechanistic model approach for the simulation of root growth in structured soil. Methods: In our alternative modelling approach, we distinguish between, firstly, the driving force for root growth, which is determined by the orientation of the previous root segment and the influence of gravitropism and, secondly, soil mechanical resistance to root growth. The latter is expressed by its inverse, soil mechanical conductance, and treated similarly to hydraulic conductivity in Darcy’s law. At the presence of macropores, soil mechanical conductance is anisotropic, which leads to a difference between the direction of the driving force and the direction of the root tip movement. Results: The model was tested using data from the literature, at pot scale, at macropore scale, and in a series of simulations where sensitivity to gravity and macropore orientation was evaluated. Conclusions: Qualitative and quantitative comparisons between simulated and experimentally observed root systems showed good agreement, suggesting that the drawn analogy between soil water flow and root growth is a useful one

The dynamics between irrigation frequency and soil nutrient management: transitioning smallholder irrigation towards more profitable and sustainable systems in Zimbabwe

Successful irrigated agriculture is underpinned by answering two critical questions: when and how much to irrigate. This article quantifies the role of the Chameleon and the Wetting Front Detector, monitoring tools facilitating decision-making and learning about soilwater- nutrient dynamics. Farmers retained nutrients in the root zone by reducing irrigation frequency, number of siphons, and event duration. Water productivity increased by more than 100% for farmers both with and without monitoring tools. Transitioning smallholder irrigation systems into profitable and sustainable schemes requires investment in technology, farmers and institutions. Importantly, technologies need embedding in a learning environment that fosters critical feedback mechanisms, such as market constraints

The role of soil water monitoring tools and agricultural innovation platforms in improving food security and income of farmers in smallholder irrigation schemes in Tanzania

Smallholder irrigation is an important pathway towards better livelihoods and food security in sub-Saharan Africa. This article assesses the contribution of farmer-friendly soil and water monitoring tools, and agricultural innovation platforms, towards household income and food security in two small-scale irrigation schemes in Tanzania. Quantitative and qualitative data from farmer’s field books, household surveys and focus groups were used to assess the impacts of the two interventions. The two interventions together contributed to enhancing smallholders’ food security and household income in the two schemes, as did the agricultural innovation platform on its own