IMENSE: An e-infrastructure environment for patient specific multiscale data integration, modelling and clinical treatment

Zasada, Stefan J.; Wang, Tao; Haidar, Ali Nasrat; Liu, Enjie; Graf, Norbert; Clapworthy, Gordon; Manos, Steven; Coveney, Peter V.

doi:10.1016/j.jocs.2011.07.001

Cited by 16 publications

(14 citation statements)

References 29 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Zasada et al (42) have taken these issues into consideration in the design of the Individualized MEdiciNe Simulation Environment (IMENSE), which provides a secure platform for the management and analysis of clinical data ( Figure 5). There are clearly legal and ethical obstacles that must be overcome before such large-scale 'data warehouses' can be exploited for research, within a clearly defined information governance framework.…”

Section: Clinical Case Study: Cancermentioning

confidence: 99%

“…There are clearly legal and ethical obstacles that must be overcome before such large-scale 'data warehouses' can be exploited for research, within a clearly defined information governance framework. Zasada et al (42) have taken these issues into consideration in the design of the Individualized MEdiciNe Simulation Environment (IMENSE), which provides a secure platform for the management and analysis of clinical data ( Figure 5). This was designed with the needs of the clinical researchers involved in ContraCancrum in mind, but should be easily adaptable to fit a wide range of clinical scenarios.…”

Section: Clinical Case Study: Cancermentioning

confidence: 99%

See 1 more Smart Citation

Patient‐Specific Modelling in Drug Design, Development and Selection Including its Role in Clinical Decision‐Making

Shublaq¹,

Sansom

Coveney

2012

Chem Biol Drug Des

Self Cite

View full text Add to dashboard Cite

Genomics has made enormous progress in the twelve years since the publication of the first draft human genome sequence, but it has not yet been translated into the clinic. Despite spiralling development costs, the number of new drug registrations is not increasing. One reason for this lies in the genetic complexity of disease. Most diseases involve dysregulation in pathways that involve many genes, and many (including most cancers) are themselves genetically heterogeneous. Systems biology involves the multi-level simulation of physiology, cell biology and biochemistry using complex computational techniques. We show here using case studies in cancer and HIV how such computational models, and particularly models based on individual patient data, can be used for drug design and development, and in the selection of the appropriate treatment for a given patient in the face of resistance mutations. If these techniques are to be adopted in routine clinical practice, clinicians will need better training in modern approaches to the integrated analysis of large-scale heterogeneous data and multi-scale models, while developers will need to provide much more usable tools. Investment in computational infrastructure is needed so that results can be returned on clinically relevant timescales and data warehouses designed with data protection as well as accessibility in mind.

show abstract

Section: Clinical Case Study: Cancermentioning

confidence: 99%

Section: Clinical Case Study: Cancermentioning

confidence: 99%

Patient‐Specific Modelling in Drug Design, Development and Selection Including its Role in Clinical Decision‐Making

Shublaq¹,

Sansom

Coveney

2012

Chem Biol Drug Des

Self Cite

View full text Add to dashboard Cite

show abstract

“…This involved clinicians, scientists and IT specialists and led to the design of the IMENSE system [34], which comprises three main components. Firstly, IMENSE provides a data warehousing system, hosted at the Centre for Computational Science at University College London (UCL), London, UK, in which anonymized patient data can be stored.…”

Section: Integrated Contracancrum E-science Environmentmentioning

confidence: 99%

Clinically driven design of multi-scale cancer models: the ContraCancrum project paradigm

et al. 2011

View full text Add to dashboard Cite

The challenge of modelling cancer presents a major opportunity to improve our ability to reduce mortality from malignant neoplasms, improve treatments and meet the demands associated with the individualization of care needs. This is the central motivation behind the ContraCancrum project. By developing integrated multi-scale cancer models, ContraCancrum is expected to contribute to the advancement of in silico oncology through the optimization of cancer treatment in the patient-individualized context by simulating the response to various therapeutic regimens. The aim of the present paper is to describe a novel paradigm for designing clinically driven multi-scale cancer modelling by bringing together basic science and information technology modules. In addition, the integration of the multi-scale tumour modelling components has led to novel concepts of personalized clinical decision support in the context of predictive oncology, as is also discussed in the paper. Since clinical adaptation is an inelastic prerequisite, a long-term clinical adaptation procedure of the models has been initiated for two tumour types, namely non-small cell lung cancer and glioblastoma multiforme; its current status is briefly summarized.

show abstract

“…One of the main objectives of the VPH ContraCancrum (Clinically oriented translational cancer multilevel modelling) project (www.contracancrum.eu) is to provide an environment (it can also be thought of as a VO) that allows clinicians and researchers to use the tools developed as part of their clinical and research practice in order to run workflows and simulations on grid infrastructure, using a heterogeneous set of patient data provided by the University of Saarland Hospital within an integrated IT environment, known as Individualized MEdiciNe Simulation Environment (IMENSE) [15]. These data include heterogeneous image scans (i.e.…”

Section: Overview Of Imense Environmentmentioning

confidence: 99%

“…In addition, we have integrated authentication, authorization and basic auditing of ACD with the Individualized MEdiciNe Simulation Environment (IMENSE) [15], developed within the ContraCancrum Project (www. contracancrum.eu), to provide secure access to clinical data and tools.…”

Section: Introductionmentioning

confidence: 99%

Audited credential delegation: a usable security solution for the virtual physiological human toolkit

et al. 2011

Self Cite

View full text Add to dashboard Cite

We present applications of audited credential delegation (ACD), a usable security solution for authentication, authorization and auditing in distributed virtual physiological human (VPH) project environments that removes the use of digital certificates from end-users' experience. Current security solutions are based on public key infrastructure (PKI). While PKI offers strong security for VPH projects, it suffers from serious usability shortcomings in terms of end-user acquisition and management of credentials which deter scientists from exploiting distributed VPH environments. By contrast, ACD supports the use of local credentials. Currently, a local ACD username -password combination can be used to access grid-based resources while Shibboleth support is underway. Moreover, ACD provides seamless and secure access to shared patient data, tools and infrastructure, thus supporting the provision of personalized medicine for patients, scientists and clinicians participating in e-health projects from a local to the widest international scale.

show abstract

IMENSE: An e-infrastructure environment for patient specific multiscale data integration, modelling and clinical treatment

Cited by 16 publications

References 29 publications

Patient‐Specific Modelling in Drug Design, Development and Selection Including its Role in Clinical Decision‐Making

Patient‐Specific Modelling in Drug Design, Development and Selection Including its Role in Clinical Decision‐Making

Clinically driven design of multi-scale cancer models: the ContraCancrum project paradigm

Audited credential delegation: a usable security solution for the virtual physiological human toolkit

Contact Info

Product

Resources

About