Computing and Information Systems - Research Publications

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    Development of an Endocrine Genomics Virtual Research Environment for Australia: Building on Success
    Sinnott, RO ; Bruns, L ; Duran, C ; Hu, W ; Jayaputera, G ; Stell, A ; Murgante, B ; Misra, S ; Carlini, M ; Torre, CM ; Nguyen, HQ ; Taniar, D ; Apduhan, BO ; Gervasi, O (SPRINGER-VERLAG BERLIN, 2013)
    The $47m Australian National eResearch Collaboration Tools and Resources (NeCTAR - www.nectar.org.au) project has recently funded an initiative to establish an Australia-wide endocrine genomics virtual laboratory (endoVL – www.endovl.org.au) covering a range of disorders including type-1, type-2 diabetes, rare diabetes-related disorders, obesity/thyroid disorders, neuroendocrine/adrenal tumours, bone disorders and disorders of sex development. This virtual laboratory will establish a range of targeted databases, clinical registries and support a range of genetically targeted clinical trials leveraging a body of international projects and experiences garnered over many years through a range of EU and MRC funded initiatives. This paper focuses on the plans for endoVL and especially, the systems it leverages in supporting large-scale clinical, collaborative environments.
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    Policy-based vulnerability assessment for virtual organisations
    Muhammad, J ; Doherty, T ; Hussain, S ; Sinnott, R (Springer Berlin Heidelberg, 2012)
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    A distributed clinical data platform for physiological studies in the brain trauma domain
    STELL, ANTHONY ; SINNOTT, RICHARD ; Donald, Rob ; Chambers, Iain ; Citerio, Giuseppe ; Enblad, Per (IEEE Computer Society, 2010)
    There are many serious and acute physiological conditions about which we have incomplete medical knowledge that can support optimal healthcare intervention. To develop effective treatments a wealth of clinical data is required for collection, analysis and feedback. Such data often does exist but is typically held in a variety of different formats and locations. This paper describes the EU FP7-funded Avert-IT project (www.avert-it.org), which has developed an integrated, real-time physiological data grid infrastructure (HypoNet) to address the specific issue of prediction of hypotensive events in the brain trauma domain and is currently being used as part of a large multi-centre clinical trial. The implementation and application of the HypoNet system is described here.
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    Towards an e-Infrastructure for urban research across Australia
    Sinnott, RO ; Galang, G ; Tomko, M ; Stimson, R (IEEE, 2011-12-01)
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    E-infrastructure support for nanoCMOS device and circuit simulations
    Sinnott, R. O. ; Stewart, G. ; Asenov, A. ; Millar, C. ; Reid, D. ; Roy, G. ; Roy, S. ; Davenhall, C. ; Harbulot, B. ; Jones, M. (ACTA Press, 2010)
    The UK e-Science EPSRC pilot project Meeting the Design Challenges of nanoCMOS Electronics (nanoCMOS – www.nanocmos.ac.uk) was funded to address the challenges facing the global electronics semiconductor industry caused by the decreasing size of Complementary Metal Oxide Semiconductor (CMOS) transistors and the atomic variability present in devices manifest at these dimensions. Fundamental problems to be addressed include the modelling, understanding and predicting the effect of differences in the atomic structure of devices on their behaviour, and then using this information to guide electronic circuit and system designers who utilise CMOS components. In this paper we describe the e-Infrastructure that has been developed as part of the nanoCMOS project and outline how it supports large scale high performance computing (HPC) simulations of ensembles of devices which can subsequently be used to model and understand the impact that they have on very large electronic circuits. Key features of this e-Infrastructure include support for very large scale HPC utilization; dealing with federated data sets and associated metadata from multi-level simulations, and addressing challenges related to security and intellectual property protection of data, simulation codes and electronic designs as a whole.
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    Single sign-on and authorization for dynamic virtual organizations
    Sinnott, R. O. ; Ajayi, O. ; Stell, A. J. ; Watt, J. ; JIANG, J. (Springer, 2006)
    The vision of the Grid is to support the dynamic establishment and subsequent management of virtual organizations (VO). To achieve this presents many challenges for the Grid community with perhaps the greatest one being security. Whilst Public Key Infrastructures (PKI) provide a form of single sign-on through recognition of trusted certification authorities, they have numerous limitations. The Internet2 Shibboleth architecture and protocols provide an enabling technology overcoming some of the issues with PKIs however Shibboleth too suffers from various limitations that make its application for dynamic VO establishment and management difficult. In this paper we explore the limitations of PKIs and Shibboleth and present an infrastructure that incorporates single sign-on with advanced authorization of federated security infrastructures and yet is seamless and targeted to the needs of end users. We explore this infrastructure through an educational case study at the National e-Science Centre (NeSC) at the University of Glasgow and Edinburgh.
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    Development of usable grid services for the biomedical community
    SINNOTT, RICHARD ( 2006)
    The BRIDGES project was funded by the UK Department of Trade and Industry to directly address the needs of the cardiovascular research scientists investigating the genetic causes of hypertension as part of the Wellcome Trust funded (£4.34M) Cardiovascular Functional Genomics (CFG) project. Specifically, the BRIDGES project developed a compute Grid and a data Grid with security at its heart. This paper presents the experiences in developing usable Grid services for the bio-community and the different phases of prototypes that were refined based upon user requirements and feedback.
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    Supporting security-oriented, inter-disciplinary research: crossing the social, clinical and geospatial domains
    Sinnott, R ; Doherty, T ; Higgins, C ; Lambert, P ; McCafferty, S ; Stell, A ; Turner, K ; Watt, J (UK e-Science All Hands Meeting, 2008)
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    User oriented access to secure biomedical resources through the grid
    Sinnott, R ; Ajayi, O ; Jiang, J ; Stell, A ; Watt, J (Life Science Grid Conference, 2006)
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    Trust realisation in collaborative clinical trials systems
    Ajayi, O ; Sinnott, R ; Stell, A (British Computer Society, 2007)