Automated segmentation and enhancement of optical coherence tomography-acquired images of rodent brain.
Optical coherence tomography (OCT) is a non-invasive optical imaging method that has proven useful in various fields such as ophthalmology, dermatology and neuroscience. In ophthalmology, significant progress has been made in retinal layer segmentation and enhancement of OCT images. There are also segmentation algorithms to separate epidermal and dermal layers in OCT-acquired images of human skin.



We describe simple image processing methods that allow automatic segmentation and enhancement of OCT images of rodent brain.



We demonstrate the effectiveness of the proposed methods for OCT-based microangiography (OMAG) and tissue injury mapping (TIM) of mouse cerebral cortex. The results show significant improvement in image contrast, delineation of tissue injury, allowing visualization of different layers of capillary beds.



Previously reported methods for other applications are yet to be used in neuroscience due to the complexity of tissue anatomy, unique physiology and technical challenges.



OCT is a promising tool that provides high resolution in vivo microvascular and structural images of rodent brain. By automatically segmenting and enhancing OCT images, structural and microvascular changes in mouse cerebral cortex after stroke can be monitored in vivo with high contrast.
Dept. of Bioengineering, University of Washington, 3720 15th Ave. NE, Seattle, WA 98195, USA; Dept. of Electrical Engineering, University of Washington, 185 Stevens Way, Seattle, WA 98195, USA.
Utku
U
Baran
Dept. of Anesthesiology and Perioperative Medicine, Knight Cardiovascular Institute, Oregon Health and Science University, Portland, OR, USA.
Wenbin
W
Zhu
Dept. of Bioengineering, University of Washington, 3720 15th Ave. NE, Seattle, WA 98195, USA.
Woo June
WJ
Choi
Dept. of Electrical Engineering, University of Washington, 185 Stevens Way, Seattle, WA 98195, USA.
Michael
M
Omori
Dept. of Anesthesiology and Perioperative Medicine, Knight Cardiovascular Institute, Oregon Health and Science University, Portland, OR, USA.
Wenri
W
Zhang
Dept. of Anesthesiology and Perioperative Medicine, Knight Cardiovascular Institute, Oregon Health and Science University, Portland, OR, USA.
Nabil J
NJ
Alkayed
Dept. of Bioengineering, University of Washington, 3720 15th Ave. NE, Seattle, WA 98195, USA. Electronic address: wangrk@uw.edu.
Ruikang K
RK
Wang
D000465:Algorithms; D000818:Animals; D001921:Brain / Q000000981:diagnostic imaging*; D051379:Mice; D010363:Pattern Recognition, Automated / Q000379:methods*; D020521:Stroke / Q000000981:diagnostic imaging; D041623:Tomography, Optical Coherence / Q000379:methods*
Image reconstruction techniques; Optical coherence tomography; Optical microangiography; Stroke