NDLI: Automated brain extraction and associated 3D inspection layers for the Rhesus macaque MRI datasets

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Automated brain extraction and associated 3D inspection layers for the Rhesus macaque MRI datasets

Content Provider	ACM Digital Library
Author	Jia, Xin Gao, Bin Fu, Zeqing Luo, Yanlin Zhu, Xiaoming Deng, Yiyi
Abstract	As we know, the rhesus macaque as a non-human primate is quite similar to human being in genetics. And it has become an essential animal model anatomy and physiology in many modern medicine research such as the cardiovascular and cerebrovascular diseases in recent years. This paper describes a pipeline from the raw rhesus macaque brain MRI data to intuitive 3D inspection 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 doesn't work well with the rhesus macaque. Firstly, we propose a reliable and efficient method to extract the brain from MRI datasets based on dividing the brain into blocks. Then, we design a trapezoid opacity transfer function based on CUDA-based real-time volume ray-casting, which is dedicated for the volume rendering to make the inspection more intuitive. Besides, the inspection of different tissues benefits understanding the volumetric datasets, so we also design layer filter for the segmented rhesus macaque brain datasets, which facilitates inspection of interior in ROI by an intuitive bimanual interaction via a Leap Motion sensor. Our experiments prove the usability and efficiency of the proposed methods.
Starting Page	261
Ending Page	269
Page Count	9
File Format	PDF
ISBN	9781450346924
DOI	10.1145/3013971.3013984
Language	English
Publisher	Association for Computing Machinery (ACM)
Publisher Date	2016-12-03
Publisher Place	New York
Access Restriction	Subscribed
Subject Keyword	3d inspection Bimanual gesture interaction Volume visualization Rhesus macaque Brain extraction
Content Type	Text
Resource Type	Article

Sl.	Authority	Responsibilities	Communication Details
1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
5	Website/Portal (Helpdesk)	Queries regarding NDLI and its services	support@ndl.gov.in
6	Contents and Copyright Issues	Queries related to content curation and copyright issues	content@ndl.gov.in
7	National Digital Library of India Club (NDLI Club)	Queries related to NDLI Club formation, support, user awareness program, seminar/symposium, collaboration, social media, promotion, and outreach	clubsupport@ndl.gov.in
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