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

Authors:

Yanlin LuoAuthors Info & Claims

VRCAI '16: Proceedings of the 15th ACM SIGGRAPH Conference on Virtual-Reality Continuum and Its Applications in Industry - Volume 1

Pages 261 - 269

https://doi.org/10.1145/3013971.3013984

Published: 03 December 2016 Publication History

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.

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Cited By

Sluÿters AOusmer MRoselli PVanderdonckt J(2022)QuantumLeap, a Framework for Engineering Gestural User Interfaces based on the Leap Motion ControllerProceedings of the ACM on Human-Computer Interaction10.1145/35322116:EICS(1-47)Online publication date: 17-Jun-2022
https://dl.acm.org/doi/10.1145/3532211
He BYang ZFan LGao BLi HYe CYou BJiang T(2020)MonkeyCBP: A Toolbox for Connectivity-Based Parcellation of Monkey BrainFrontiers in Neuroinformatics10.3389/fninf.2020.0001414Online publication date: 28-Apr-2020
https://doi.org/10.3389/fninf.2020.00014

Index Terms

Automated brain extraction and associated 3D inspection layers for the Rhesus macaque MRI datasets
1. Computing methodologies
  1. Modeling and simulation
    1. Simulation types and techniques
      1. Scientific visualization

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Published In

cover image ACM Conferences

VRCAI '16: Proceedings of the 15th ACM SIGGRAPH Conference on Virtual-Reality Continuum and Its Applications in Industry - Volume 1

December 2016

381 pages

ISBN:9781450346924

DOI:10.1145/3013971

Conference Chairs:
Yiyu Cai
Nanyang Technological University, Singapore
,
Daniel Thalmann
École Polytechnique Fédérale de Lausanne, Switzerland and Nanyang Technological University, Singapore

Copyright © 2016 ACM.

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SIGGRAPH: ACM Special Interest Group on Computer Graphics and Interactive Techniques

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New York, NY, United States

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Published: 03 December 2016

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VRCAI '16

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VRCAI '16: The 15th International Conference on Virtual-Reality Continuum and its Applications in Industry

December 3 - 4, 2016

Zhuhai, China

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Cited By

Sluÿters AOusmer MRoselli PVanderdonckt J(2022)QuantumLeap, a Framework for Engineering Gestural User Interfaces based on the Leap Motion ControllerProceedings of the ACM on Human-Computer Interaction10.1145/35322116:EICS(1-47)Online publication date: 17-Jun-2022
https://dl.acm.org/doi/10.1145/3532211
He BYang ZFan LGao BLi HYe CYou BJiang T(2020)MonkeyCBP: A Toolbox for Connectivity-Based Parcellation of Monkey BrainFrontiers in Neuroinformatics10.3389/fninf.2020.0001414Online publication date: 28-Apr-2020
https://doi.org/10.3389/fninf.2020.00014

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