Automated segmentation and enhancement of optical coherence tomography-acquired images of rodent brain

• Published in: Journal of neuroscience methods Vol. 270; pp. 132 - 137
• Main Authors: Baran, Utku, Zhu, Wenbin, Choi, Woo June, Omori, Michael, Zhang, Wenri, Alkayed, Nabil J., Wang, Ruikang K.
• Format: Journal Article
• Language: English
• Published: Netherlands Elsevier B.V 01.09.2016
• Subjects: Algorithms; Animals; Brain - diagnostic imaging; Image reconstruction techniques; Mice; Optical coherence tomography; Optical microangiography; Pattern Recognition, Automated - methods; Stroke; Stroke - diagnostic imaging; Tomography, Optical Coherence - methods; Stroke; Optical coherence tomography; Optical microangiography; Image reconstruction techniques
• ISSN: 0165-0270; 1872-678X
• DOI: 10.1016/j.jneumeth.2016.06.014

•Automated algorithms are proposed for segmentation and enhancement of OCT images.•These algorithms are shown to be effective on OCT-acquired rodent brain images.•In vivo dynamics in mouse cerebral cortex is imaged after stroke with high contrast. 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.