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All Hands Meeting 2009 Oxford – 8 th December 2009. The Virtual Physiological Human ToolKit Jonathan Cooper University of Oxford On behalf of the ToolKit team  VPH NoE, 2009 The VPH ToolKit Vision VPH aim: collaborative investigation of the human body as a single complex system

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slide1

All Hands Meeting 2009

Oxford – 8th December 2009.

TheVirtual Physiological HumanToolKit

Jonathan Cooper

University of Oxford

On behalf of the ToolKit team

 VPH NoE, 2009

slide2

The VPH ToolKit Vision

  • VPH aim: collaborative investigation of the human body as a single complex system
    • integrative approach
  • The ToolKit refers to the
    • technologies;
    • methods; and
    • services
  • needed to achieve this aim
slide3

Who is in the VPH?

Parallel VPH projects

Industry

Grid access CA

CV/Atheroschlerosis IP

Liver surgery STREP

Breast cancer/ diagnosis STREP

Heart/LVD surgery STREP

Osteoporosis

IP

Oral cancer/BM D&T STREP

Networking NoE

Cancer STREP

Heart/CV disease STREP

Vascular/AVF & haemodialysis STREP

Liver cancer/RFA therapy STREP

Heart/CV disease STREP

Alzheimer's/BM & diagnosis STREP

Security and Privacy in VPH CA

Other

Clinics

slide4

Why does the VPH community need a ToolKit ?

  • Much excellent research already done on individual components
  • But much repetition too
  • Need for greater collaboration and interoperability to achieve greater scientific breakthroughs
slide5

So what is a VPH ToolKit?

Grid access & middleware

Simulation Tools

Workflow environments

Image Analysis

Tools

Data Fusion

Ontologies

VPH markup languages for

model encapsulation

VPH markup languages for

data encapsulation

Model Repositories

Data Repositories

slide7

VPH NoE: data activities

  • Looking at wide exposure of clinical data
    • What is allowed: ethical issues
    • Implementation: Local & global infrastructure needs
  • Data standards required in order to make use of it
    • DICOM, HL7, etc.
slide8

VPH model reuse requirements

  • What is needed to reuse published models?
    • Minimum information standards
      • MIRIAM, MIASE
    • Syntax
      • SBML, CellML, FieldML, NeuroML, …
      • SED-ML
    • Semantics
      • Metadata
      • Ontological annotation
slide10

VPH ToolKit: The Challenge

  • Many tools, services & technologies are available to assist with VPH research
    • Hard to know what is available
    • Hard to learn from experiences of others
      • Especially when crossing academic disciplines
slide11

The VPH ToolKit Portal

  • A database of VPH research-related ‘capacities’
    • Specific tools
    • Methods for conducting VPH research in an integrative fashion
    • Services available to researchers
  • Also some articles on relevant topics
  • Facility to submit new entries, and reviews
    • These are moderated by the NoE at present
slide14

Next steps

  • Increased community engagement
    • Seeking contributions to the ToolKit
    • Training activities
  • Putting the pieces together
    • e.g. providing examples of integrating tools, centred around scientific workflows
slide15

Any questions?

http://toolkit.vph-noe.eu/

The financial support of the European Commission is gratefully acknowledged. Material in this presentation reflects only the author's views and the Commissionis not liable for any use that may be made of the information contained herein.

 VPH NoE, 2009