Variable interactions in risk factors for dementia

Current estimates predict 1 in 3 people born today will develop dementia, suggesting a major impact on future population health. As such, research needs to connect specialist clinicians, data scientists and the general public. The In-MINDD project seeks to address this through the provision of a Profiler, a socio-technical information system connecting all three groups. The public interact, providing raw data; data scientists develop and refine prediction algorithms; and clinicians use in-built services to inform decisions. Common across these groups are Risk Factors, used for dementia-free survival prediction. Risk interactions could greatly inform prediction but determining these interactions is a problem underpinned by massive numbers of possible combinations. Our research employs a machine learning approach to automatically select best performing hyperparameters for prediction and learns variable interactions in a non-linear survival-analysis paradigm. Demonstrating effectiveness, we evaluate this approach using longitudinal data with a relatively small sample size

Participatory evaluation: The case of the natal primary science project of the urban foundation

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A configurable deep network for high-dimensional clinical trial data

Clinical studies provide interesting case studies for data mining researchers, given the often high degree of dimensionality and long term nature of these studies. In areas such as dementia, accurate predictions from data scientists provide vital input into the understanding of how certain features (representing lifestyle) can predict outcomes such as dementia. Most research involved has used traditional or shallow data mining approaches which have been shown to offer varying degrees of accuracy in datasets with high dimensionality. In this research, we explore the use of deep learning architectures, as they have been shown to have high predictive capabilities in image and audio datasets. The purpose of our research is to build a framework which allows easy reconfiguration for the performance of experiments across a number of deep learning approaches. In this paper, we present our framework for a configurable deep learning machine and our evaluation and analysis of two shallow approaches: regression and multi-layer perceptron, as a platform to a deep belief network, and using a dataset created over the course of 12 years by researchers in the area of dementia

Automating the integration of clinical studies into medical ontologies

A popular approach to knowledge extraction from clinical databases is to first define an ontology of the concepts one wishes to model and subsequently, use these concepts to test various hypotheses and make predictions about a person’s future health and wellbeing. The challenge for medical experts is in the time taken to map between their concepts/hypotheses and information contained within clinical studies. Presently, most of this work is performed manually. We have developed a method to generate links between Risk Factors in a medical ontology and the questions and result data in longitudinal studies. This can then be exploited to express complex queries based on domain concepts, to extract knowledge from external studies

Anomaly and event detection for unsupervised athlete performance data

There are many projects today where data is collected automatically to provide input for various data mining algorithms. A problem with freshly generated datasets is their unsupervised nature, leading to difficulty in fitting predictive algorithms without substantial manual effort. One of the first steps in dataset preparation and mining is anomaly detection, where clear anomalies and outliers as well as events or changes in the pattern of the data are identified as a precursor to subsequent steps in data mining. In the research presented here, we provide a multi-step anomaly detection process which utilises different combinations of algorithms for the most accurate identification of outliers and events

Variable interactions in risk factors for dementia

Current estimates predict 1 in 3 people born today will develop dementia, suggesting a major impact on future population health. As such, research needs to connect specialist clinicians, data scientists and the general public. The In-MINDD project seeks to address this through the provision of a Profiler, a socio-technical information system connecting all three groups.\ud The public interact, providing raw data; data scientists develop and refine prediction algorithms; and clinicians use in-built services to inform decisions. Common across these groups are Risk Factors, used for dementia-free survival prediction. Risk interactions could greatly inform prediction but determining these interactions is a problem underpinned by massive numbers of possible combinations. Our research employs a machine learning approach to automatically select best performing hyperparameters for prediction and learns variable interactions in a non-linear survival-analysis paradigm. Demonstrating effectiveness, we evaluate this approach using longitudinal data with a relatively small sample size

Mapping longitudinal studies to risk factors in an ontology for dementia

A common activity carried out by healthcare professionals is to test various hypotheses on longitudinal study data in an effort to develop new and more reliable algorithms that might determine the possibility of developing certain illnesses. The In-MINDD project provides input from a number of European dementia experts to identify the most accurate model of inter-related risk factors which can yield a personalised dementia risk quotient and profile. This model is then validated against the large population-based prospective Maastricht Aging Study (MAAS) dataset. As part of this overall goal, the research presented in this paper demonstrates how we can automate the process of mapping modifiable risk factors against large sections of the aging study and thus, use information technology to provide more powerful query interfaces

Using videogames to improve molecular graphics tools

Well-designed videogames provide intuitive and engaging ways of understanding and interacting with highly complex systems. The aim of this study was to explore the use of videogames as a lens for the design of bioinformatics visualisation tools, with a particular focus on molecular graphics systems designed to explore 3D structures of proteins. We conducted a workshop bringing together experts in game design, molecular biology, data visualisation, and software development, to explore how videogame expertise could inform the design of the protein visualisation tool, Aquaria. Results of the workshop suggest that games could influence the design of tutorials for new users, the nature of the interaction within a 3D space, and act as a mechanism for engaging users in crowd- sourced tasks