Human brain diffusion-weighted MRI, collected with high diffusion-weighting angular resolution and repeated measurements at multiple diffusion-weighting strengths
Abstract/Contents
- Abstract
- Subjects were two healthy male participants, age 37 and 27. The experimental procedures were approved by the Stanford University Institutional Review Board and participants provided informed consent. Diffusion-weighted MRI data were collected at the Center for Cognitive and Neurobiological Imaging at Stanford University on 3T GE Discovery MR750 MRI system. A 32-channel head coil was used. In each scan MR images were acquired with a dual spin echo diffusion-weighted sequence for 150 different directions of diffusion-weighting, determined by an electro-static repulsion algorithm (Jones, Horsfield, & Simmons, 1999). The spatial resolution of the measurement was 2x2x2 mm. In different scans, b-values were set to 1000, 2000 and 4000 s/mm2 and respectively, TE values were: 83.1/93.6/106.9 msec. 10 non-diffusion weighted images (b0) were acquired at the beginning of each scan. Two scans were performed in each b-value in immediate succession. Data at a b-value of 2000 were collected in one session and data at a b-value of 1000 and 4000 were collected in a separate session. Segmentation of different types of tissue was performed on high-resolution T1-weighted image. Two FSPGR images were acquired at 0.7x0.7x0.7 mm resolution and averaged to increase SNR of tissue contrast. An initial segmentation was performed using Freesurfer (Dale et al., 1999) and additional manual editing of the segmentation was then performed using itkgray (Yushkevich et al., 2006). MR images were motion corrected to the average b0 image in each scan, using a rigid body alignment algorithm, implemented in SPM (http://www.fil.ion.ucl.ac.uk/spm/). The direction of the diffusion-gradient in each diffusion-weighted volume was corrected using the rotation parameters from the motion correction procedure. Because of the relatively long duration between the RF excitation and image acquisition in the dual-spin echo sequence used, there is sufficient time for eddy currents to subside. Hence, eddy current correction was not applied. All pre-processing steps have been implemented in Matlab as part of the mrVista software distribution (Dougherty, Ben-Shachar, Bammer, Brewer, & Wandell, 2005), which can be downloaded at http://github.com/vistalab/vistasoft.
Description
| Type of resource | software, multimedia |
|---|---|
| Date created | 2013 |
Creators/Contributors
| Author | Rokem, Ariel | |
|---|---|---|
| Author | Yeatman, Jason | |
| Author | Pestilli, Franco | |
| Principal investigator | Wandell, Brian |
Subjects
| Subject | Human |
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| Subject | Brain |
| Subject | Anatomy |
| Subject | MRI |
| Subject | Diffusion-weighted MRI. |
| Genre | Dataset |
| Genre | Dataset |
Bibliographic information
| Related Publication | Rokem A, Yeatman JD, Pestilli F, Kay KN, Mezer A, van der Walt S, and Wandell, BA. (2015) Evaluating the Accuracy of Diffusion MRI Models in White Matter. PLoS ONE 10(4): e0123272. doi:10.1371/journal.pone.0123272 |
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| Related item |
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| Location | https://purl.stanford.edu/ng782rw8378 |
Access conditions
- Use and reproduction
- User agrees that, where applicable, content will not be used to identify or to otherwise infringe the privacy or confidentiality rights of individuals. Content distributed via the Stanford Digital Repository may be subject to additional license and use restrictions applied by the depositor.
- License
- This work is licensed under a Creative Commons Attribution 3.0 Unported license (CC BY).
Preferred citation
- Preferred Citation
- Rokem A, Yeatman JD, Pestilli F, Kay KN, Mezer A, van der Walt S, and Wandell, BA. (2015) Evaluating the Accuracy of Diffusion MRI Models in White Matter. PLoS ONE 10(4): e0123272. doi:10.1371/journal.pone.0123272
Collection
Contact information
- Contact
- arokem@gmail.com
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