Array optimisation for multichannel electrical resistivity tomography instruments

In recent years there has been considerable research into the selection of near-optimal arrays of electrode configurations that enhance the resolution of electrical resistivity tomography (ERT) images. Several algorithms have been developed that select resistivity measurements based on their contribution to the cumulative sensitivity of the array (Furman et al., 2004; Hennig and Weller, 2005) or its model resolution matrix (Stummer et al. , 2004; Wilkinson et al., 2006a; 2006b). Homogeneous subsurface resistivity distributions were assumed for these studies, although better results can be obtained using the same algorithms if the resistivity distribution is known a priori (Anthansiou, 2006). When compared to standard arrays, such as dipole-dipole or Wenner- Schlumberger, optimised arrays can substantially improve the resolution of the ERT image for the same number of measurements (Wilkinson et al., 2006b). The driver for researching array optimisation techniques has been the development of computer controlled ERT systems that can address arbitrary combinations of current and potential electrodes. Unfortunately all the published optimisation algorithms share a problem that is likely to impede their wider use: the arrays that they produce are inherently ‘single channel’ (SC). Since they do not take advantage of the multichannel (MC) capability of modern ERT instruments, the optimised arrays that they produce are rather inefficient to use compared to many standard arrays that are well suited to MC operation. However, we have developed a simple extension that constrains our previous algorithm to choose near-optimal configurations that also fit well into a MC measurement scheme. This extension could easily be adapted to work with the other optimisation schemes cited above

Global sensitivity analysis of the climate–vegetation system to astronomical forcing: an emulator-based approach

A global sensitivity analysis is performed to describe the effects of astronomical forcing on the climate–vegetation system simulated by the model of intermediate complexity LOVECLIM in interglacial conditions. The methodology relies on the estimation of sensitivity measures, using a Gaussian process emulator as a fast surrogate of the climate model, calibrated on a set of well-chosen experiments. The outputs considered are the annual mean temperature and precipitation and the growing degree days (GDD). The experiments were run on two distinct land surface schemes to estimate the importance of vegetation feedbacks on climate variance. This analysis provides a spatial description of the variance due to the factors and their combinations, in the form of "fingerprints" obtained from the covariance indices. The results are broadly consistent with the current under-standing of Earth's climate response to the astronomical forcing. In particular, precession and obliquity are found to contribute in LOVECLIM equally to GDD in the Northern Hemisphere, and the effect of obliquity on the response of Southern Hemisphere temperature dominates precession effects. Precession dominates precipitation changes in subtropical areas. Compared to standard approaches based on a small number of simulations, the methodology presented here allows us to identify more systematically regions susceptible to experiencing rapid climate change in response to the smooth astronomical forcing change. In particular, we find that using interactive vegetation significantly enhances the expected rates of climate change, specifically in the Sahel (up to 50% precipitation change in 1000 years) and in the Canadian Arctic region (up to 3° in 1000 years). None of the tested astronomical configurations were found to induce multiple steady states, but, at low obliquity, we observed the development of an oscillatory pattern that has already been reported in LOVECLIM. Although the mathematics of the analysis are fairly straightforward, the emulation approach still requires considerable care in its implementation. We discuss the effect of the choice of length scales and the type of emulator, and estimate uncertainties associated with specific computational aspects, to conclude that the principal component emulator is a good option for this kind of application

The detection and tracking of mine-water pollution from abandoned mines using electrical tomography

Increasing emphasis is being placed on the environmental and societal impact of mining, particularly in the EU, where the environmental impacts of abandoned mine sites (spoil heaps and tailings) are now subject to the legally binding Water Framework and Mine Waste Directives. Traditional sampling to monitor the impact of mining on surface waters and groundwater is laborious, expensive and often unrepresentative. In particular, sparse and infrequent borehole sampling may fail to capture the dynamic behaviour associated with important events such as flash flooding, mine-water break-out, and subsurface acid mine drainage. Current monitoring practice is therefore failing to provide the information needed to assess the socio-economic and environmental impact of mining on vulnerable eco-systems, or to give adequate early warning to allow preventative maintenance or containment. BGS has developed a tomographic imaging system known as ALERT ( Automated time-Lapse Electrical Resistivity Tomography) which allows the near real-time measurement of geoelectric properties "on demand", thereby giving early warning of potential threats to vulnerable water systems. Permanent in-situ geoelectric measurements are used to provide surrogate indicators of hydrochemical and hydrogeological properties. The ALERT survey concept uses electrode arrays, permanently buried in shallow trenches at the surface but these arrays could equally be deployed in mine entries or shafts or underground workings. This sensor network is then interrogated from the office by wireless telemetry (e.g: GSM, low-power radio, internet, and satellite) to provide volumetric images of the subsurface at regular intervals. Once installed, no manual intervention is required; data is transmitted automatically according to a pre-programmed schedule and for specific survey parameters, both of which may be varied remotely as conditions change (i.e: an adaptive sampling approach). The entire process from data capture to visualisation on the web-portal is seamless, with no manual intervention. Examples are given where ALERT has been installed and used to remotely monitor (i) seawater intrusion in a coastal aquifer (ii) domestic landfills and contaminated land and (iii) vulnerable earth embankments. The full potential of the ALERT concept for monitoring mine-waste has yet to be demonstrated. However we have used manual electrical tomography surveys to characterise mine-waste pollution at an abandoned metalliferous mine in the Central Wales orefield in the UK. Hydrogeochemical sampling confirms that electrical tomography can provide a reliable surrogate for the mapping and long-term monitoring of mine-water pollution

“I wish I’d told them”: a qualitative study examining the unmet psychosexual needs of prostate cancer patients during follow-up after treatment

<b>Objective</b> To gain insight into patients' experiences of follow-up care after treatment for prostate cancer and identify unmet psychosexual needs.<p></p> <b>Methods</b> Semi-structured interviews were conducted with a purposive sample of 35 patients aged 59-82 from three UK regions. Partners were included in 18 interviews. Data were analyzed using constant comparison. <p></p> <b>Results</b> (1) Psychosexual problems gained importance over time, (2) men felt they were rarely invited to discuss psychosexual side effects within follow-up appointments and lack of rapport with health care professionals made it difficult to raise problems themselves, (3) problems were sometimes concealed or accepted and professionals' attempts to explore potential difficulties were resisted by some, and (4) older patients were too embarrassed to raise psychosexual concerns as they felt they would be considered 'too old' to be worried about the loss of sexual function.<p></p> <b>Conclusion</b> Men with prostate cancer, even the very elderly, have psychosexual issues for variable times after diagnosis. These are not currently always addressed at the appropriate time for the patient.Practice implications Assessments of psychosexual problems should take place throughout the follow-up period, and not only at the time of initial treatment. Further research examining greater willingness or reluctance to engage with psychosexual interventions may be particularly helpful in designing future intervention

Optical biosensor techniques for monitoring organic pollutants in the aquatic environment

The principal contribution of Southampton University to the BIOPTICAS project is in the realization of planar optical waveguide probes to determine the optical properties of attached sensing films. Three types of device are being investigated: surface plasmon resonance (SPR), directional coupler and chemiluminescence sensors. Techniques have been established for the deposition of compatible electrodes for electrochemical modulation of sensing reactions as an integral part of devices, and equipment has been set up for the fabrication of waveguides in glass substrates by field-assisted ion-exchange. The modelling and design stages for the devices are now close to completion, and we have begun the fabrication and evaluation of preliminary designs and verification of models. Interaction with partners has resulted in the establishment of standardised sensor chip formals and plans for comparative evaluations of the sensors developed in the project, using standardised sensing reactions are well in hand

Waveguide surface plasmon resonance sensors

Planar waveguide surface plasmon resonance sensors have great potential for use in the field of environmental monitoring. In this paper we present a rigorous model for the optical power transmittance of this type of sensor. This model is used to determine the change in transmitted power when a thin layer is adsorbed to the metal-clad region of the sensor, as a function of the waveguide and metal film parameters. Design curves for sensors based upon glass waveguides coated with thin gold films immersed in water are presented. Experimentally determined changes in the output power of a waveguide surface plasmon sensor, as a function of the length of the gold film, are presented and compared to theory

Characterising sand and gravel deposits using electrical resistivity tomography (ERT) : case histories from England and Wales

Electrical Resistivity Tomography (ERT) is a rapidly developing geophysical imaging technique that is now widely used to visualise subsurface geological structure, groundwater and lithological variations. It is being increasingly used in environmental and engineering site investigations, but despite its suitability and potential benefits, ERT has yet to be routinely applied by the minerals industry to sand and gravel deposit assessment and quarry planning. The principal advantages of ERT for this application are that it is a cost-effective non-invasive method, which can provide 2D or 3D spatial models of the subsurface throughout the full region of interest. This complements intrusive sampling methods, which typically provide information only at discrete locations. Provided that suitable resistivity contrasts are present, ERT has the potential to reveal mineral and overburden thickness and quality variations within the body of the deposit. Here we present a number of case studies from the UK illustrating the use of 2D and 3D ERT for sand and gravel deposit investigation in a variety of geological settings. We use these case studies to evaluate the performance of ERT, and to illustrate good practice in the application of ERT to deposit investigation. We propose an integrated approach to site investigation and quarry planning incorporating both conventional intrusive methods and ERT

Parameter uncertainty of a dynamic multispecies size spectrum model

Dynamic size spectrum models have been recognized as an effective way of describing how size-based interactions can give rise to the size structure of aquatic communities. They are intermediate-complexity ecological models that are solutions to partial differential equations driven by the size-dependent processes of predation, growth, mortality, and reproduction in a community of interacting species and sizes. To be useful for quantitative fisheries management these models need to be developed further in a formal statistical framework. Previous work has used time-averaged data to “calibrate” the model using optimization methods with the disadvantage of losing detailed time-series information. Using a published multispecies size spectrum model parameterized for the North Sea comprising 12 interacting fish species and a background resource, we fit the model to time-series data using a Bayesian framework for the first time. We capture the 1967–2010 period using annual estimates of fishing mortality rates as input to the model and time series of fisheries landings data to fit the model to output. We estimate 38 key parameters representing the carrying capacity of each species and background resource, as well as initial inputs of the dynamical system and errors on the model output. We then forecast the model forward to evaluate how uncertainty propagates through to population- and community-level indicators under alternative management strategies

Mapping the topography of a protein energy landscape

Protein energy landscapes are highly complex, yet the vast majority of states within them tend to be invisible to experimentalists. Here, using site-directed mutagenesis and exploiting the simplicity of tandem-repeat protein structures, we delineate a network of these states and the routes between them. We show that our target, gankyrin, a 226-residue 7-ankyrin-repeat protein, can access two alternative (un)folding pathways. We resolve intermediates as well as transition states, constituting a comprehensive series of snapshots that map early and late stages of the two pathways and show both to be polarized such that the repeat array progressively unravels from one end of the molecule or the other. Strikingly, we find that the protein folds via one pathway but unfolds via a different one. The origins of this behavior can be rationalized using the numerical results of a simple statistical mechanics model that allows us to visualize the equilibrium behavior as well as single-molecule folding/unfolding trajectories, thereby filling in the gaps that are not accessible to direct experimental observation. Our study highlights the complexity of repeat-protein folding arising from their symmetrical structures; at the same time, however, this structural simplicity enables us to dissect the complexity and thereby map the precise topography of the energy landscape in full breadth and remarkable detail. That we can recapitulate the key features of the folding mechanism by computational analysis of the native structure alone will help toward the ultimate goal of designed amino-acid sequences with made-to-measure folding mechanisms—the Holy Grail of protein folding

A pilot randomised controlled trial of personalised care after treatment for prostate cancer (TOPCAT-P): nurse-led holistic-needs assessment and individualised psychoeducational intervention: study protocol

INTRODUCTION. Prostate cancer is common and the incidence is increasing, but more men are living longer after diagnosis, and die with their disease rather than of it. Nonetheless, specific and substantial physical, sexual, emotional and mental health problems often lead to a poor quality of life. Urology services increasingly struggle to cope with the demands of follow-up care, and primary care is likely to play the central role in long-term follow-up. The present phase II trial will evaluate the feasibility and acceptability of a nurse-led, person-centred psychoeducational intervention, delivered in community or primary care settings. METHODS AND ANALYSIS. Prostate cancer survivors diagnosed in the past 9-48 months and currently biochemically stable will be identified from hospital records by their treating clinician. Eligible men would have either completed radical treatment, or would be followed up with prostate specific antigen monitoring and symptom reporting. We will recruit 120 patients who will be randomised to receive either an augmented form of usual care, or an additional nurse-led intervention for a period of 36 weeks. Following the health policy in Wales, the intervention is offered by a key worker, is promoting prudent healthcare and is using a holistic needs assessment. Outcome measures will assess physical symptoms, psychological well-being, confidence in managing own health and quality of life. Healthcare service use will be measured over 36 weeks. Feedback interviews with patients and clinicians will further inform the acceptability of the intervention. Recruitment, attrition, questionnaire completion rates and outcome measures variability will be assessed, and results will inform the design of a future phase III trial and accompanying economic evaluation. ETHICS AND DISSEMINATION. Ethics approval was granted by Bangor University and North Wales REC (13/WA/0291). Results will be reported in peer-reviewed publications, at scientific conferences, and directly through national cancer and primary care networks. TRIAL REGISTRATION NUMBER. ISRCTN 34516019