GENIUS

From RealityGrid

Grid Enabled Neurosurgical Imaging Using Simulation

[edit] Project Objectives

• To study cerebral blood flow using patient-specific image-based models using a bespoke lattice-Boltzmann solver distributed across an international federated grid of supercomputers.

• To provide clinicians with insights into the causes of certain types of cerebral blood flow anomalies (including the A-V shunt within vein of Galen malformation), and to produce a prototype system for studying brain blood flow models that will be of use to clinicians.

• To develop tools and policies by means of which users can better exploit the ability to reserve and co-reserve HPC resources, and thus to geographically distribute single large scale simulations across multiple resources.

• To develop interfaces which permit users to easily deploy and monitor simulations across multiple computational resources, and which could be used by clinicians themselves to run simulations.

• To visualize and steer the results of distributed simulations in real time as well as post facto.

• To demo GENIUS at SC07, and to enter one or more HPC competitions at SC08.

[edit] Work Package Links

Different work packages within GENIUS have their own wiki pages to report status etc:

1) Information on the deployment of HemeLB on available resources (including TG, LONI, NW-Grid, NGS, HPCx & HECToR), plans for any testing and reports of progress are covered on the HemeLB Deployment page.

2) For AHE status and progress on objectives, including with GT4 and HARC, see the AHE GENIUS page.

3) Details of the HARC deployment status can be found on the GENIUS HARC page.

4) Networks details, including requirements for UKLight and status in meeting these, can be found on the GENIUS Network page.

5) Details of the progress made visualising and steering of HemeLB are covered on the GENIUS Viz page.

6) Information about access to medical imaging data are given on the GENIUS data page.

7) LONI Infrastructure

8) Details and development progress on the steering and visualisation client can be found on the GENIUS GUI page.

9) Details on RealityGrid integration can be found on the GENIUS RealityGrid page.

10) Background medical information relating to the GENIUS project is given on the GENIUS medical page.

11) Overview of the GENIUS workflow can be found on the Clinical GENIUS page.

[edit] Background

Cardiovascular disease is the cause of a large number of deaths in the developed world. Cerebral blood flow behaviour plays a crucial role in the understanding, diagnosis and treatment of the disease; problems are often due to anomalous blood flow behaviour in the neighbourhood of bifurcations and aneurysms within the brain although the details are not well understood. Experimental studies are often impractical owing to the difficulty of measuring behaviour in humans; however, X-ray computer tomography (CT) and magnetic resonance imaging angiography (MRA) do furnish non-invasive static and dynamical data acquisition. Today such imaging methods represent a very important tool for diagnosis of various cardiovascular diseases, together with the design of cardiovascular reconstructions and devices for the enhancement of blood flow.

Notwithstanding these advances in measurement methods, modelling and simulation have a crucial role to play in hemodynamics. There are evident limitations to the experimental methods which can be complemented by simulation. In the GENIUS project, we are concerned with performing brain blood flow simulations in support of clinical neurosurgery. Simulation offers the clinician the possibility of performing non-invasive virtual experiments to plan and study the effects of certain courses of surgical treatment with no danger to the patient, including support for diagnosis, therapy and planning of vascular treatment. The approach offers the prospect of providing clinicians with virtual patient specific analysis and treatment.

[edit] AHM'08 (Edinburgh, UK) September 8-11 Demo Schedule

More details are here AHM08

[edit] SC'08 (Austin, Texas, USA) November 15-21 Demo Schedule

More details are here SC08

[edit] Resources

Genius Troubleshooting

For notes on pitfalls experienced getting GENIUS related things to work across TG, NGS and LONI, and their solutions, see GENIUS Troubleshooting.

Meetings

See the GENIUS Meetings page.

Mailing list

A project discussion mailing list is run at UCL. To sign up for the list visit the mailman signup page http://www.mailinglists.ucl.ac.uk/mailman/listinfo/genius-discuss. An archive of list posts is maintained at http://www.mailinglists.ucl.ac.uk/pipermail/genius-discuss/. Note: sign-up requests need to be approved by the list moderator.

GENIUS Users

For certificate DNs etc of the GENIUS users, see the GENIUS Users page.

Slides

Post slides from GENIUS related talks here.

Background Papers

Post links to GENIUS related papers in this section.