CHPC - Research Computing and Data Support for the University
In addition to deploying and operating high performance computational resources and providing advanced user support and training, CHPC serves as an expert team to broadly support the increasingly diverse research computing and data needs on campus. These needs include support for big data, big data movement, data analytics, security, virtual machines, Windows science application servers, protected environments for data mining and analysis of protected health information, and advanced networking.
If you are new to CHPC, the best place to start to get more information on CHPC resources and policies is our Getting Started page.
Upcoming Events:
CHPC Downtime: Tuesday March 5 starting at 7:30am
Posted February 8th, 2024
Two upcoming security related changes
Posted February 6th, 2024
Allocation Requests for Spring 2024 are Due March 1st, 2024
Posted February 1st, 2024
CHPC ANNOUNCEMENT: Change in top level home directory permission settings
Posted December 14th, 2023
CHPC Spring 2024 Presentation Schedule Now Available
CHPC PE DOWNTIME: Partial Protected Environment Downtime -- Oct 24-25, 2023
Posted October 18th, 2023
CHPC INFORMATION: MATLAB and Ansys updates
Posted September 22, 2023
CHPC SECURITY REMINDER
Posted September 8th, 2023
CHPC is reaching out to remind our users of their responsibility to understand what the software being used is doing, especially software that you download, install, or compile yourself. Read More...News History...
Cortical Surface Electrode Localization Uncertainty
By Chantel M. Charlebois1,2, Kimia Shayestehfard3, Daria Nesterovich Anderson1,2, Andrew Janson1,2, Jeneva Cronin4, Moritz Dannhauer2, David Caldwell4, Sumientra Rempersad3, Larry Sorenson4, Jeff Ojemann5, Dana Brooks3, Rob MacLeod1,2, Christopher R. Butson1,2, Alan Dorval1
1Department of Biomedical Engineering; 2Scientific Computing and Imaging (SCI) Institute, University of Utah; 3Department of Electrical & Computer Engineering, Northeastern University; 4Department of Bioengineering; 5Department of Neurological Surgery, University of Washington
Electrocorticography (ECoG) is an invasive technique commonly used to monitor patients with intractable epilepsy to aid in seizure onset localization and eloquent cortex mapping. Modeling accurate electrode locations is necessary to make predictions about stimulation of seizure focus localization.
- Brain shift occurs after surgical implantation of the ECoG array. When the post-operative CT is co-registered to the pre-operative MRI the electrodes appear to be inside the brain instead of on the cortical surface
- The electrode localization and projection to the cortical surface are based off of thresholding the CT. CT acquisition between patients and centers differs, therefore we want to use a threshold that is insensitive to these differences
Aim: Determine if the CT threshold range affects electrode localization and the resulting simulation of clinical ECoG measurements during stimulation.
We created three finite element meshes with the three different electrode localizations based on their threshold range and solved the bioelectric field problem for bipolar stimulation between electrodes 18 (0.5 mA source) and 23 (-0.5 mA sink), shown in above image. We compared simulations for three different electrode-localizations based on a small, medium, and large CT threshold range to clinical recordings. The three threshold models did not have large voltage differences when simulating clinical stimulation. Moving forward, we can use any of the threshold ranges because they did not greatly differ in their simulation solutions. This insensitivity to the threshold range gives us more confidence in the electrode locations of our models.
Support from a Joint US (NFS) German (DRG) Collaborative Research in Computational Neuroscience grant, IIS-1515168; an NSF CAREER award, 1351112; and an NIH P 41, GM103545, "Center for Integrative Biomedical Computing".
System Status
General Environment
General Nodes | ||
---|---|---|
system | cores | % util. |
kingspeak | 944/972 | 97.12% |
notchpeak | 2793/3212 | 86.96% |
lonepeak | 3140/3140 | 100% |
Owner/Restricted Nodes | ||
system | cores | % util. |
ash | 1144/1152 | 99.31% |
notchpeak | 18082/18328 | 98.66% |
kingspeak | 3096/5340 | 57.98% |
lonepeak | 60/416 | 14.42% |
Protected Environment
General Nodes | ||
---|---|---|
system | cores | % util. |
redwood | 200/616 | 32.47% |
Owner/Restricted Nodes | ||
system | cores | % util. |
redwood | 757/6200 | 12.21% |