Sparse cross-products of metadata in scientific simulation management

Managing scientific data is by no means a trivial task even in a single site environment with a small number of researchers involved. We discuss some issues concerned with posing well-specified experiments in terms of parameters or instrument settings and the metadata framework that arises from doing so. We are particularly interested in parallel computer simulation experiments, where very large quantities of warehouse-able data are involved. We consider SQL databases and other framework technologies for manipulating experimental data. Our framework manages the the outputs from parallel runs that arise from large cross-products of parameter combinations. Considerable useful experiment planning and analysis can be done with the sparse metadata without fully expanding the parameter cross-products. Extra value can be obtained from simulation output that can subsequently be data-mined. We have particular interests in running large scale Monte-Carlo physics model simulations. Finding ourselves overwhelmed by the problems of managing data and compute ¿resources, we have built a prototype tool using Java and MySQL that addresses these issues. We use this example to discuss type-space management and other fundamental ideas for implementing a laboratory information management system

Reducing the burden of hypoglycaemia in people with diabetes through increased understanding:design of the Hypoglycaemia Redefining Solutions for Better Lives (Hypo-RESOLVE) project

Background Hypoglycaemia is the most frequent complication of treatment with insulin or insulin secretagogues in people with diabetes. Severe hypoglycaemia, i.e. an event requiring external help because of cognitive dysfunction, is associated with a higher risk of adverse cardiovascular outcomes and all‐cause mortality, but underlying mechanism(s) are poorly understood. There is also a gap in the understanding of the clinical, psychological and health economic impact of ‘non‐severe’ hypoglycaemia and the glucose level below which hypoglycaemia causes harm. Aim To increase understanding of hypoglycaemia by addressing the above issues over a 4‐year period. Methods Hypo‐RESOLVE is structured across eight work packages, each with a distinct focus. We will construct a large, sustainable database including hypoglycaemia data from >100 clinical trials to examine predictors of hypoglycaemia and establish glucose threshold(s) below which hypoglycaemia constitutes a risk for adverse biomedical and psychological outcomes, and increases healthcare costs. We will also investigate the mechanism(s) underlying the antecedents and consequences of hypoglycaemia, the significance of glucose sensor‐detected hypoglycaemia, the impact of hypoglycaemia in families, and the costs of hypoglycaemia for healthcare systems. Results The outcomes of Hypo‐RESOLVE will inform evidence‐based definitions regarding the classification of hypoglycaemia in diabetes for use in daily clinical practice, future clinical trials and as a benchmark for comparing glucose‐lowering interventions and strategies across trials. Stakeholders will be engaged to achieve broadly adopted agreement. Conclusion Hypo‐RESOLVE will advance our understanding and refine the classification of hypoglycaemia, with the ultimate aim being to alleviate the burden and consequences of hypoglycaemia in people with diabetes

PICES Press, Vol. 15, No. 2, July 2007

Contents [Individual sections are downloadable from the official URL link listed below]: PICES Science in 2007 (pdf, 0.1 Mb) 2007 Wooster Award (pdf, 0.1 Mb) FUTURE - A milestone reached but our task is not done (pdf, < 0.1 Mb) International symposium on "Reproductive and Recruitment Processes of Exploited Marine Fish Stocks" (pdf, 0.1 Mb) Recent results of the micronekton sampling inter-calibration experiment (pdf, 0.1 Mb) 2007 PICES workshop on "Measuring and monitoring primary productivity in the North Pacific" (pdf, 0.1 Mb) 2007 Harmful Algal Bloom Section annual workshop events (pdf, 0.1 Mb) A global approach for recovery and sustainability of marine resources in Large Marine Ecosystems (pdf, 0.3 Mb) Highlights of the PICES Sixteenth Annual Meeting (pdf, 0.4 Mb) Ocean acidification of the North Pacific Ocean (pdf, 0.3 Mb) Workshop on NE Pacific Coastal Ecosystems (2008 Call for Salmon Survival Forecasts) (pdf, 0.1 Mb) The state of the western North Pacific in the first half of 2007 (pdf, 0.4 Mb) PICES Calendar (pdf, 0.4 Mb) The Bering Sea: Current status and recent events (pdf, 0.3 Mb) PICES Interns (pdf, 0.3 Mb) Recent trends in waters of the subarctic NE Pacific (pdf, 0.3 Mb) Election results at PICES (pdf, 0.2 Mb) A new PICES award for monitoring and data management activities (pdf, < 0.1 Mb

1st INCF Workshop on Sustainability of Neuroscience Databases

The goal of the workshop was to discuss issues related to the sustainability of neuroscience databases, identify problems and propose solutions, and formulate recommendations to the INCF. The report summarizes the discussions of invited participants from the neuroinformatics community as well as from other disciplines where sustainability issues have already been approached. The recommendations for the INCF involve rating, ranking, and supporting database sustainability

Conservation science in NOAA’s National Marine Sanctuaries: description and recent accomplishments

This report describes cases relating to the management of national marine sanctuaries in which certain scientific information was required so managers could make decisions that effectively protected trust resources. The cases presented represent only a fraction of difficult issues that marine sanctuary managers deal with daily. They include, among others, problems related to wildlife disturbance, vessel routing, marine reserve placement, watershed management, oil spill response, and habitat restoration. Scientific approaches to address these problems vary significantly, and include literature surveys, data mining, field studies (monitoring, mapping, observations, and measurement), geospatial and biogeographic analysis, and modeling. In most cases there is also an element of expert consultation and collaboration among multiple partners, agencies with resource protection responsibilities, and other users and stakeholders. The resulting management responses may involve direct intervention (e.g., for spill response or habitat restoration issues), proposal of boundary alternatives for marine sanctuaries or reserves, changes in agency policy or regulations, making recommendations to other agencies with resource protection responsibilities, proposing changes to international or domestic shipping rules, or development of new education or outreach programs. (PDF contains 37 pages.