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Casalecchio di Reno, Italy

Agrawal A.,University of Bedfordshire | Kohout J.,University of Bedfordshire | Clapworthy G.J.,University of Bedfordshire | McFarlane N.J.B.,University of Bedfordshire | And 4 more authors.
Journal of Supercomputing

In this paper, we present an approach to interactive out-of-core volume data exploration that has been developed to augment the existing capabilities of the LhpBuilder software, a core component of the European project LHDL ( http://www.biomedtown.org/biomed-town/lhdl ). The requirements relate to importing, accessing, visualizing and extracting a part of a very large volume dataset by interactive visual exploration. Such datasets contain billions of voxels and, therefore, several gigabytes are required just to store them, which quickly surpass the virtual address limit of current 32-bit PC platforms. We have implemented a hierarchical, bricked, partition-based, out-of-core strategy to balance the usage of main and external memories. A new indexing scheme is introduced, which permits the use of a multiresolution bricked volume layout with minimum overhead and also supports fast data compression. Using the hierarchy constructed in a pre-processing step, we generate a coarse approximation that provides a preview using direct volume visualization for large-scale datasets. A user can interactively explore the dataset by specifying a region of interest (ROI), which further generates a much more accurate data representation inside the ROI. If even more precise accuracy is needed inside the ROI, nested ROIs are used. The software has been constructed using the Multimod Application Framework, a VTK-based system; however, the approach can be adopted for the other systems in a straightforward way. Experimental results show that the user can interactively explore large volume datasets such as the Visible Human Male/Female (with file sizes of 3.15/12.03 GB, respectively) on a commodity graphics platform, with ease. © 2009 Springer Science+Business Media, LLC. Source

McFarlane N.J.B.,University of Bedfordshire | Lin X.,University of Bedfordshire | Zhao Y.,University of Bedfordshire | Clapworthy G.J.,University of Bedfordshire | And 4 more authors.
Interface Focus

Ischaemic heart failure remains a significant health and economic problem worldwide. This paper presents a user-friendly software system that will form a part of the virtual pathological heart of the Virtual Physiological Human (VPH2) project, currently being developed under the European Commission Virtual Physiological Human (VPH) programme. VPH2 is an integrated medicine project, which will create a suite of modelling, simulation and visualization tools for patient-specific prediction and planning in cases of post-ischaemic left ventricular dysfunction. The work presented here describes a three-dimensional interactive visualization for simulating left ventricle restoration surgery, comprising the operations of cutting, stitching and patching, and for simulating the elastic deformation of the ventricle to its post-operative shape. This will supply the quantitative measurements required for the post-operative prediction tools being developed in parallel in the same project. © 2011 The Royal Society. Source

McFarlane N.J.B.,University of Bedfordshire | Ma X.,University of Bedfordshire | Clapworthy G.J.,University of Bedfordshire | Bessis N.,University of Bedfordshire | And 2 more authors.
Proceedings of the International Conference on Information Visualisation

The MSV project aims to survey current best practice in multiscale visualisation and to construct a software toolkit which will make multiscale techniques readily accessible to biomedical researchers and clinicians. In this paper, current methods for multiscale data visualisation in several domains are reviewed, and a novel classification of multiscale techniques for biomedical applications by function is proposed. The classification will form the basis of a design menu and toolkit for multiscale visualisation. © 2012 IEEE. Source

Kohout J.,University of West Bohemia | Chiarini A.,BioComputing Competence Center | Clapworthy G.J.,University of Bedfordshire | Klajnsek G.,University of Bedfordshire
Computer Methods and Programs in Biomedicine

At least 1% of the general population have an aneurysm (or possibly more) in their cerebral blood vessels. If an aneurysm ruptures, it kills the patient in up to 60% of cases. In order to choose the optimal treatment, clinicians have to monitor the development of the aneurysm in time. Nowadays, aneurysms are typically identified manually, which means that the monitoring is often imprecise since the identification is observer dependent. As a result, the number of misdiagnosed cases may be large. This paper proposes a fast semi-automatic method for the identification of aneurysms which is based on the analysis of the skeleton of blood vessels. Provided that the skeleton is accurate, the results achieved by our method have been deemed acceptable by expert clinicians. © 2012 Elsevier Ireland Ltd. Source

Viceconti M.,Laboratorio Of Tecnologia Medica | Viceconti M.,BioComputing Competence Center | Clapworthy G.,University of Bedfordshire | Testi D.,BioComputing Competence Center | And 2 more authors.
Computer Methods and Programs in Biomedicine

The introduction of integrative approaches to biomedical research (integrative biology, physiome, Virtual Physiological Human, etc.) poses original problems to computer aided medicine: the need to operate with large amounts of data that are strongly heterogeneous in structure, format and even in the knowledge domain that generated them; the need to integrate all of these data into a coherent whole; the further complication imposed by the fact that more and more frequently these data are captured at very different dimensional and/or temporal scales. The present study describes a first attempt at providing an interactive visualisation environment for homogeneous biomedical data defined over radically different spatial or temporal scales. In particular, we describe new strategies for the management of the dimensional information of highly heterogeneous data types; the management of temporal multiscaling; for 3D unstructured spatial multiscale visualisation and the related interaction paradigms and user interface. Preliminary results with a prototype implementation based on the OpenMAF application framework (http://www.openmaf.org) indicate that it is possible to develop effective environments for interactive visualisation of multiscale biomedical data. © 2010 Elsevier Ireland Ltd. Source

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