Automated brain extraction and immersive exploration of its layers in virtual reality for the rhesus macaque MRI data sets

doi:10.1002/cav.1841

	Automated brain extraction and immersive exploration of its layers in virtual reality for the rhesus macaque MRI data sets
	Luo, Yanlin 1; Gao, Bin2 ; Deng, Yiyi 1; Zhu, Xiaoming 1; Jiang, Tianzi2 ; Zhao, Xudong 3; Yang, Zhengyi2
刊名	COMPUTER ANIMATION AND VIRTUAL WORLDS
	2019
卷号	30 期号:1 页码:16
关键词	bimanual gesture interaction brain extraction rhesus macaque volume visualization 3D inspection
ISSN号	1546-4261
DOI	10.1002/cav.1841
通讯作者	Yang, Zhengyi(zhengyi.yang@nlpr.ia.ac.cn)
英文摘要	As we know, the rhesus macaque as a nonhuman primate is quite similar to a human being in genetics. Moreover, it has become essential in animal model anatomy and physiology in many modern medicine research such as the cardiovascular and cerebrovascular diseases in the recent years. This paper describes a pipeline from the raw rhesus macaque brain magnetic resonance imaging data to intuitive 3D inspection of its layers. Brain extraction is an initial step for subsequent analyses, but most of the existing methods so far are designed for human brain, which does not work well with the rhesus macaque. Firstly, we propose a reliable and efficient method to extract the brain from magnetic resonance imaging data sets based on dividing the brain into blocks. Then, we design a trapezoid opacity transfer function based on Compute Unified Device Architecture (CUDA)-based real-time volume ray casting, which is dedicated to volume rendering to make the inspection more intuitive. Besides, for an immersive exploration in virtual reality benefits understanding the volumetric data sets, so we also design a layer filter for the segmented rhesus macaque brain data sets, which facilitates the inspection of the interior in Region of Interest (ROI) by an intuitive bimanual interaction via a Leap Motion sensor. Our experiments prove usability and efficiency.
资助项目	Strategic Priority Research Program of the Chinese Academy of Sciences[XD-B02030300] ; Natural Science Foundation of China[91132301] ; Natural Science Foundation of China[91432302] ; National Social Science Foundation of China[BCA150050]
WOS关键词	VOLUME ; VISUALIZATION ; SEGMENTATION ; MORPHOMETRY
WOS研究方向	Computer Science
语种	英语
出版者	WILEY
WOS记录号	WOS:000458275000006
资助机构	Strategic Priority Research Program of the Chinese Academy of Sciences ; Natural Science Foundation of China ; National Social Science Foundation of China
内容类型	期刊论文
源URL	[http://ir.ia.ac.cn/handle/173211/25303]
专题	中国科学院自动化研究所
通讯作者	Yang, Zhengyi
作者单位	1.Beijing Normal Univ, Coll Informat Sci & Technol, Beijing, Peoples R China 2.Chinese Acad Sci, Inst Automat, Brainnetome Ctr, Beijing, Peoples R China 3.Chinese Acad Sci, Inst Biophys, State Key Lab Brain & Cognit Sci, Beijing, Peoples R China
推荐引用方式 GB/T 7714	Luo, Yanlin,Gao, Bin,Deng, Yiyi,et al. Automated brain extraction and immersive exploration of its layers in virtual reality for the rhesus macaque MRI data sets[J]. COMPUTER ANIMATION AND VIRTUAL WORLDS,2019,30(1):16.
APA	Luo, Yanlin.,Gao, Bin.,Deng, Yiyi.,Zhu, Xiaoming.,Jiang, Tianzi.,...&Yang, Zhengyi.(2019).Automated brain extraction and immersive exploration of its layers in virtual reality for the rhesus macaque MRI data sets.COMPUTER ANIMATION AND VIRTUAL WORLDS,30(1),16.
MLA	Luo, Yanlin,et al."Automated brain extraction and immersive exploration of its layers in virtual reality for the rhesus macaque MRI data sets".COMPUTER ANIMATION AND VIRTUAL WORLDS 30.1(2019):16.