From molecule to man: Decision support in individualized E-health

Sloot, Peter M. A.; Tirado-Ramos, Alfredo; Altıntaş, Ilkay; Bubak, Marian; Boucher, Charles A.

doi:10.1109/mc.2006.380

Cited by 54 publications

(30 citation statements)

References 14 publications

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“…It is a rule-based scheme that is based on expert opinion, scientific literature, published data and relating genotype to phenotype experiments (Sloot et al 2006).…”

Section: The Virolab Approach To Hivmentioning

confidence: 99%

HIV decision support: from molecule to man

Sloot

Coveney

Ertaylan

et al. 2009

Phil. Trans. R. Soc. A.

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Human immunodeficiency virus (HIV) is recognized to be one of the most destructive pandemics in recorded history. Effective highly active antiretroviral therapy and the availability of genetic screening of patient virus data have led to sustained viral suppression and higher life expectancy in patients who have been infected with HIV. The sheer complexity of the disease stems from the multiscale and highly dynamic nature of the system under study. The complete cascade from genome, proteome, metabolome and physiome to health forms a multidimensional system that crosses many orders of magnitude in temporal and spatial scales. Understanding, quantifying and handling this complexity is one of the biggest challenges of our time, which requires a highly multidisciplinary approach. In order to supply researchers with an interactive framework and to provide the medical professional with appropriate tools and information for making a balanced and reliable clinical decision, we have developed 'ViroLab', a collaborative decision-support system (http://www.virolab.org/). ViroLab contains computational models that cover various spatial and temporal scales from atomic-level interactions in nanoseconds up to sociological interactions on the epidemiological level, spanning years of disease progression. ViroLab allows for personalized drug ranking. It is on trial in six hospitals and various virology and epidemiology laboratories across Europe.

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“…It is a rule-based scheme that is based on expert opinion, scientific literature, published data and relating genotype to phenotype experiments (Sloot et al 2006).…”

Section: The Virolab Approach To Hivmentioning

confidence: 99%

HIV decision support: from molecule to man

Sloot

Coveney

Ertaylan

et al. 2009

Phil. Trans. R. Soc. A.

Self Cite

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“…Examples of ViroLab gems are such services as the Drug Resistance Service [17] or the RegaDB HIV sequence alignment and subtyping tools [18], all wrapped as Grid Objects.…”

Section: Local Gemsmentioning

confidence: 99%

A Tool for Building Collaborative Applications by Invocation of Grid Operations

Malawski

Bartyński

Bubak

2008

Computational Science – ICCS 2008

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Abstract. The motivation for this work is the need for providing tools which facilitate building scientific applications that are developed and executed on various Grid systems, implemented with different technologies. As a solution to this problem, we have developed the Grid Operation Invoker (GOI) which offers object-oriented method invocation semantics for interacting with computational services accessible with diverse middleware frameworks. GOI forms the core of the ViroLab virtual laboratory engine and it is used to invoke operations from within experiments described using a scripting notation. In this paper, after outlining the features of GOI, we describe how it is enhanced with a mechanism of so-called local gems which allows adding high-level support for middleware technologies based on the batch job-processing model, e.g. EGEE LCG/gLite. As a result, we demonstrate how a molecular dynamics program called NAMD, deployed on EGEE, was integrated with the ViroLab virtual laboratory.

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“…One of the main tasks of the EU IST ViroLab project [1], [2] is to provide an easy way for different specialists -computer scientists as well as medical researchers -to access distributed resources with sharing and processing clinical data coming from medical practitioners.…”

Section: Introductionmentioning

confidence: 99%

Environment for Collaborative Development and Execution of Virtual Laboratory Applications

Funika

Harężlak

Król

et al. 2008

Computational Science – ICCS 2008

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Abstract. This paper presents the solutions for a user interface environment which have been developed within the ViroLab Virtual Laboratory to enable developers and medical researchers to develop and execute experiments. Experiments require support in form of a script editor easily extendible by a number of additional functions related to the functionality of the Virtual Laboratory, like sharing experiments, and an experiment management mechanism which enables the experiments to be executed with a number of facilities allowing, e.g. tracking the execution, logging errors. Moreover, two user groups, developers and users, need to collaborate to improve experiments and introduce more refinements to the research conducted, which imposes many requirements on the environment which becomes the main collaboration platform for the researchers. The work identifies these requirements in the domain of medical sciences and proposes solutions for efficient and convenient collaboration.

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From molecule to man: Decision support in individualized E-health

Cited by 54 publications

References 14 publications

HIV decision support: from molecule to man

HIV decision support: from molecule to man

A Tool for Building Collaborative Applications by Invocation of Grid Operations

Environment for Collaborative Development and Execution of Virtual Laboratory Applications

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