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Research at the University of Oxford into molecular evolution led to the development of BEAST, a powerful suite of computer programs for evolutionary analysis. Viral genome sequences from infected populations can be analysed to infer both viral population history and epidemiological parameters. This approach has been used to track and predict the transmission and evolution of pathogens, particularly viral infections of humans such as influenza and HIV. BEAST was used alongside traditional epidemiological methods by the World Health Organization to rapidly assess and identify the origins of the 2009 H1N1 `Swine Flu' pandemic; immediate recommendations for necessary international action followed. This approach is now widely adopted by health protection agencies and health ministries around the world and is being applied to understand viral diseases of both humans and animals.
The WinBUGS software (and now OpenBUGS software), developed initially at Cambridge from 1989-1996 and then further at Imperial from 1996-2007, has made practical MCMC Bayesian methods readily available to applied statisticians and data analysts. The software has been instrumental in facilitating routine Bayesian analysis of a vast range of complex statistical problems covering a wide spectrum of application areas, and over 20 years after its inception, it remains the leading software tool for applied Bayesian analysis among both academic and non-academic communities internationally. WinBUGS had over 30,000 registered users as of 2009 (the software is now open-source and users are no longer required to register) and a Google search on the term `WinBUGS' returns over 205,000 hits (over 42,000 of which are since 2008) with applications as diverse as astrostatistics, solar radiation modelling, fish stock assessments, credit risk assessment, production of disease maps and atlases, drug development and healthcare provider profiling.
In a series of papers from 2003, Gibson (Maxwell Institute) and collaborators developed Bayesian computational methods for fitting stochastic models for epidemic dynamics. These were subsequently applied to the design of control programmes for pathogens of humans and plants. A first application concerns the bacterial infection Clostridium difficile in hospital wards. A stochastic model was developed which was instrumental in designing control measures, rolled out in 2008 across NHS Lothian region, and subsequently adopted across NHS Scotland. Incidence in Lothian reduced by around 65%, saving an estimated £3.5M per annum in treatment and other costs, reducing mortality and improving patient outcomes, with similar impacts elsewhere in Scotland. A second application concerns the spread of epidemics of plant disease in agricultural, horticultural and natural environments. Models developed in collaboration with plant scientists from Cambridge have been exploited by the Department for Environment, Food and Rural Affairs (Defra) and the Forestry Commission under a £25M scheme, initiated in 2009, to control sudden oak death in the UK, and by the United States Department of Agriculture to control sudden oak death in the USA.
Since 2008, statistical research at the University of Bristol has significantly influenced policies, practices and tools aimed at evaluating and promoting the quality of institutional and student learning in the education sector in the UK and internationally. These developments have also spread beyond the education sector and influence the inferential methods employed across government and other sectors. The underpinning research develops methodologies and a much-used suite of associated software packages that allows effective inference from complicated data structures, which are not well-modelled using traditional statistical techniques that assume homogeneity across observational units. The ability to analyse complicated data (such as pupil performance measures when measured alongside school, classroom, context and community factors) has resulted in a significant transformation of government and institutional policies and their practices in the UK, and recommendations in Organisation for Economic Co-operation and Development (OECD) policy documents. These techniques for transforming complex data into useful evidence are well-used across the UK civil service, with consequent policy shifts in areas such as higher education admissions and the REF2014 equality and diversity criteria.
Mathematical modelling of livestock infections and disease control policies is an important part of planning for future epidemics and informing policy during an outbreak of infectious disease. Researchers in the Mathematics Institute, University of Warwick, are considered to be at the cutting-edge of developing policy-orientated mathematical modelling for a number of livestock infections. Such models have been used to inform government policy for foot-and-mouth disease (FMD) and a range of other infections including bovine tuberculosis (bTB) and bee infections. From 2008, their work with responsible national and international agencies has focused on statistical inference from early outbreak data, formulating models and inferring parameter values for bTB infection spread within and between farms, developing predictive models of FMD outbreaks in the USA, and extending such models to areas where FMD is endemic. This research has helped to shape policy and determined how policy-makers perceive and use predictive models in real-time.
With global demand for energy ever increasing, environmental impact has become a major priority for the oil industry. A collaboration between researchers at the University of Glasgow and Shell Global Solutions has developed GWSDAT (GroundWater Spatiotemporal Data Analysis Tool). This easy-to-use interactive software tool allows users to process and analyse groundwater pollution monitoring data efficiently, enabling Shell to respond quickly to detect and evaluate the effect of a leak or spill. Shell estimates that the savings gained by use of the monitoring tool exceed $10m over the last three years. GWSDAT is currently being used by around 200 consultants across many countries (including the UK, US, Australia and South Africa) with potentially significant impacts on the environment worldwide.
Since 2004, researchers in Cambridge have developed a series of generic and flexible models to predict the spread of plant diseases in agricultural, horticultural and natural environments. These now underpin policy decisions relating to the management and control of a number of such diseases, including sudden oak death and ash dieback in the UK (by Defra and the Forestry Commission), and sudden oak death in the US (by the United States Department of Agriculture). This has subsequently had an impact on how practitioners manage these diseases in the field, and on the environment through the implementation of disease mitigation strategies. In the case of ash dieback, the Cambridge work has also directly contributed to public involvement in mapping the spread of the disease.
Reversible Jump Markov chain Monte Carlo, introduced by Peter Green [1] in 1995, was the first generic technique for conducting the computations necessary for joint Bayesian inference about models and their parameters, and it remains by far the most widely used, 18 years after its introduction. The paper has been (by September 2013) cited over 3800 times in the academic literature, according to Google Scholar, the vast majority of the citing articles being outside statistics and mathematics. This case study, however, focusses on substantive applications outside academic research altogether, in the geophysical sciences, ecology and the environment, agriculture, medicine, social science, commerce and engineering.
Small area estimation (SAE) describes the use of Bayesian modelling of survey and administrative data in order to provide estimates of survey responses at a much finer level than is possible from the survey alone. Over the recent past, academic publications have mostly targeted the development of the methodology for SAE using small-scale examples. Only predictions on the basis of realistically sized samples have the potential to impact on governance and our contribution is to fill a niche by delivering such SAEs on a national scale through the use of a scaling method. The impact case study concerns the use of these small area predictions to develop disease-level predictions for some 8,000 GPs in England and so to produce a funding formula for use in primary care that has informed the allocation of billions of pounds of NHS money. The value of the model has been recognised in NHS guidelines. The methodology has begun to have impact in other areas, including the BIS `Skills for Life' survey.
A generalized additive model (GAM) explores the extent to which a single output variable of a complex system in a noisy environment can be described by a sum of smooth functions of several input variables.
Bath research has substantially improved the estimation and formulation of GAMs and hence
This improved statistical infrastructure has resulted in improved data analysis by practitioners in fields such as natural resource management, energy load prediction, environmental impact assessment, climate policy, epidemiology, finance and economics. In REF impact terms, such changes in practice by practitioners leads ultimately to direct economic and societal benefits, health benefits and policy changes. Below, these impacts are illustrated via two specific examples: (1) use of the methods by the energy company EDF for electricity load forecasting and (2) their use in environmental management. The statistical methods are implemented in R via the software package mgcv, largely written at Bath. As a `recommended' R package mgcv has also contributed to the global growth of R, which currently has an estimated 1.2M business users worldwide [A].