SkullStripper

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  Scatter plot of the original FA data through the genu of the corpus callosum of a normal brain.

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  Regression of FA data; solid line represents the mean and dotted lines the standard deviation.

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Key Investigators

• University of Heidelberg: Martin Loepprich MS
• MIT CSAIL: Sylvain Jaume PhD
• Harvard Medical School: Andriy Fedorov PhD, Ron Kikinis MD

Objective

Skull Stripping is a 3D image processing technique to mask out non-brain areas in MRI images. Skull Stripping is often required before applying a segmentation technique such as the EM Segmentation. We are developing a Skull Stripping module in Slicer3 that will be able to work both on human MRIs and on monkey MRIs. This project is in collaboration with the NA-MIC project for the investigation of Alcohol Stress Interaction using monkey MRI images by Andriy Fedorov (BWH), Xiaoxing Li (VT) and Chris Wyatt (VT).

Approach, Plan

Our module, called SkullStripper, is based on the work of the NA-MIC consortium done by Snehashis Roy (JHU), Xiaodong Tao (GE) and Nicole Aucoin (BWH). First we will perform a comparison study of the Slicer3 module SkullStripper and the FSL Brain Extraction Tool (BET).

Progress

References

• Fletcher P, Tao R, Jeong W, Whitaker R. A volumetric approach to quantifying region-to-region white matter connectivity in diffusion tensor MRI. Inf Process Med Imaging. 2007;20:346-358. PMID: 17633712.
• Corouge I, Fletcher P, Joshi S, Gouttard S, Gerig G. Fiber tract-oriented statistics for quantitative diffusion tensor MRI analysis. Med Image Anal. 2006 Oct;10(5):786-98. PMID: 16926104.
• Corouge I, Fletcher P, Joshi S, Gilmore J, Gerig G. Fiber tract-oriented statistics for quantitative diffusion tensor MRI analysis. Int Conf Med Image Comput Comput Assist Interv. 2005;8(Pt 1):131-9. PMID: 16685838.
• Goodlett C, Corouge I, Jomier M, Gerig G, A Quantitative DTI Fiber Tract Analysis Suite, The Insight Journal, vol. ISC/NAMIC/ MICCAI Workshop on Open-Source Software, 2005, Online publication: http://hdl.handle.net/1926/39 .