Journal
BIOMEDICAL OPTICS EXPRESS
Volume 6, Issue 7, Pages 2294-2310Publisher
OPTICAL SOC AMER
DOI: 10.1364/BOE.6.002294
Keywords
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Funding
- NIBIB/NIH [R01EB007542, K99EB017723]
- American Cancer Society [RSG-09-174-01-CCE]
- Avon Grant [02-2009-093, 02-2011-095]
- NIEHS/NIH [R01ES08314]
- Tufts Collaborates Seed Grant Program
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Defining fiber orientation at each voxel within a 3D biomedical image stack is potentially useful for a variety of applications, including cancer, wound healing and tissue regeneration. Current methods are typically computationally intensive or inaccurate. Herein, we present a 3D weighted orientation vector summation algorithm, which is a generalization of a previously reported 2D vector summation technique aimed at quantifying collagen fiber orientations simultaneously at each voxel of an image stack. As a result, voxel-wise fiber orientation information with 4 degrees to 5 degrees accuracy can be determined, and the computational time required to analyze a typical stack with the size of 512x512x100 voxels is less than 5 min. Thus, this technique enables the practical extraction of voxel-specific orientation data for characterizing structural anisotropy in 3D specimens. As examples, we use this approach to characterize the fiber organization in an excised mouse mammary gland and a 3D breast tissue model. (C) 2015 Optical Society of America
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