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A dynamic tree-based registration could handle possible large deformations among MR brain images

Pei Zhang, Guorong Wu, Yaozong Gao, Pew-Thian Yap, Dinggang Shen
2016 Computerized Medical Imaging and Graphics  
In this paper, we propose a dynamic tree-based strategy for effective largedeformation registration and multi-atlas segmentation.  ...  For simplicity, many existing methods perform pairwise image registration, leading to inaccurate segmentation especially when shape variation is large.  ...  In this paper, we describe a registration scheme for multi-atlas segmentation under large deformation. Similar to (Jia et al., 2012) , a tree is used for robust registration.  ... 
doi:10.1016/j.compmedimag.2016.04.005 pmid:27235894 pmcid:PMC4930896 fatcat:caebkddltnc3njjniw46ck2wrq

Multi-atlas segmentation with particle-based group-wise image registration

Joohwi Lee, Ilwoo Lyu, Martin Styner, Sebastien Ourselin, Martin A. Styner
2014 Medical Imaging 2014: Image Processing  
We propose a novel multi-atlas segmentation method that employs a group-wise image registration method for the brain segmentation on rodent magnetic resonance (MR) images.  ...  In the experiment, we show that our segmentation algorithm provides more accuracy with multi-atlas label fusion and stability against pair-wise image registration.  ...  Acknowledgement The following grants are acknowledged for financial support: P01 DA022446, P30 HD03110, R41 NS059095, U01 AA020022, A020023, A020024, AA06059, AA019969, U54 sEB005149.  ... 
doi:10.1117/12.2043333 pmid:25075158 pmcid:PMC4112129 dblp:conf/miip/LeeLS14 fatcat:5yd565j3wfh3todfycbr72e3xi

Front Matter: Volume 9413

2015 Medical Imaging 2015: Image Processing  
Base 36 numbering is employed for the last two digits and indicates the order of articles within the volume. Numbers start with 00,  ...  atlases [9413-45] SESSION 10 CLASSIFICATION 9413 1B Random local binary pattern based label learning for multi-atlas segmentation [9413-46] 9413 1C Multi-output decision trees for lesion segmentation  ...  free-form deformations [9413-60] 9413 1Q Using image synthesis for multi-channel registration of different image modalities [9413-61] 1R Getting the most out of additional guidance information in deformable  ... 
doi:10.1117/12.2194368 fatcat:lbd4hy3s2rbodfhutf34bmarhu

A Discrete MRF Framework for Integrated Multi-Atlas Registration and Segmentation

Stavros Alchatzidis, Aristeidis Sotiras, Evangelia I. Zacharaki, Nikos Paragios
2016 International Journal of Computer Vision  
Multi-Atlas Registration Multi-atlas registration is performed by registering in a pairwise fashion all atlases to the target image.  ...  Multi-Atlas Registration Let us recall that the deformation model is parametrized by N deformation grids.  ... 
doi:10.1007/s11263-016-0925-2 fatcat:rzdsnl5wrjg6ppmrrqse3ylnvm

CASMIL: a comprehensive software/toolkit for image-guided neurosurgeries

Gulsheen Kaur, Jun Tan, Mohammed Alam, Vipin Chaudhary, Dingguo Chen, Ming Dong, Hazem Eltahawy, Farshad Fotouhi, Christopher Gammage, Jason Gong, William Grosky, Murali Guthikonda (+14 others)
2006 International Journal of Medical Robotics and Computer Assisted Surgery  
It is an integration of various modules including rigid and non-rigid body co-registration (image-image, image-atlas, and image-patient), automated 3D segmentation, brain shift predictor, knowledge based  ...  Also, it has multi-level parallel computing to provide near real-time interaction with iMRI (Intra-operative MRI).  ...  The transfer of anatomical knowledge from 3D atlases to patient images via image-atlas co-registration is a very helpful tool for planning.  ... 
doi:10.1002/rcs.87 pmid:17520623 fatcat:fixqyseuwfhevocwaacbk4cr6i

Front Matter: Volume 9784

2016 Medical Imaging 2016: Image Processing  
[9784-24] 9784 0Q Multi-object model-based multi-atlas segmentation for rodent brains using dense discrete correspondences [9784-25] 9784 0R Fast correspondences for statistical shape models of brain  ...  for optical coherence tomography images [9784-19] 9784 0L Combined self-learning based single-image super-resolution and dual-tree complex wavelet transform denoising for medical images [9784-20] 9784  ...  Smart grid initialization reduces the computational complexity of multi-objective image registration based on a dual-dynamic transformation model to account for large anatomical differences Proc. of SPIE  ... 
doi:10.1117/12.2240619 fatcat:kot6cogf4rf6dcjhkzdrr5gahi

A High-Resolution Atlas and Statistical Model of the Human Heart From Multislice CT

C. Hoogendoorn, N. Duchateau, D. Sanchez-Quintana, T. Whitmarsh, F. M. Sukno, Mathieu De Craene, K. Lekadir, A. F. Frangi
2013 IEEE Transactions on Medical Imaging  
In this paper, we present a detailed atlas and spatio-temporal statistical model of the human heart based on a large population of 3D+time multi-slice computed tomography sequences, and the framework for  ...  For the study of the heart, however, the construction of comprehensive atlases and spatio-temporal models is faced with a number of challenges, in particular the need to handle large and highly variable  ...  ACKNOWLEDGMENTS We would like to thank the anonymous reviewers for their constructive comments, and Mr. Milton Hoz and Ms. Silvina Ré for their help with the atlas website and the computing cluster.  ... 
doi:10.1109/tmi.2012.2230015 pmid:23204277 fatcat:ydl5l4i6bjedzatru22n4zrxie

Robust multi-atlas label propagation by deep sparse representation

Chen Zu, Zhengxia Wang, Daoqiang Zhang, Peipeng Liang, Yonghong Shi, Dinggang Shen, Guorong Wu
2017 Pattern Recognition  
Keywords Hierarchical sparse representation; Multi-atlas segmentation; Patch-based label fusion Zu et al.  ...  Recently, multi-atlas patch-based label fusion has achieved many successes in medical imaging area.  ...  In general, multi-atlas segmentation includes two steps, i.e., (1) Registration step, for aligning the selected atlases as well as their corresponding label images to the target image space [4] [5] [6  ... 
doi:10.1016/j.patcog.2016.09.028 pmid:27942077 pmcid:PMC5144541 fatcat:773t76zyprchnmmdkkqd7wydei

Motion tracking of left ventricle and coronaries in 4D CTA

Dong Ping Zhang, Xiahai Zhuang, Sebastien Ourselin, Daniel Rueckert, Benoit M. Dawant, David R. Haynor
2011 Medical Imaging 2011: Image Processing  
To segment the left ventricle automatically, we perform three levels of registration using a cardiac atlas obtained from MR images.  ...  Once the images have been aligned, a dynamic motion model of the left ventricle can be obtained by applying the computed free-form deformations to the segmented left ventricle at ED phase.  ...  In this paper, we propose an atlas-based segmentation method and registration-based motion tracking framework to achieve this.  ... 
doi:10.1117/12.877946 dblp:conf/miip/ZhangZOR11 fatcat:q22jejynrjf2xd7manlizq6xim

A review on brain structures segmentation in magnetic resonance imaging

Sandra González-Villà, Arnau Oliver, Sergi Valverde, Liping Wang, Reyer Zwiggelaar, Xavier Lladó
2016 Artificial Intelligence in Medicine  
Future trends should combine multi-atlas with learning-based or deformable approaches Abstract Background and objectives: Automatic brain structures segmentation in magnetic resonance images has been widely  ...  Atlas-based approaches achieve good results when segmenting the hippocampus (DSC between 0.75 -0.90), thalamus (0.88 -0.92) and lateral ventricles (0.83 -0.93), while deformable methods perform good for  ...  [103] introduced a multi-atlas-based multi-image segmentation Page 8 of 32 A c c e p t e d M a n u s c r i .  ... 
doi:10.1016/j.artmed.2016.09.001 pmid:27926381 fatcat:morzi7uy6zch7p73l7t7mrq2ti

A Tetrahedron-Based Heat Flux Signature for Cortical Thickness Morphometry Analysis [chapter]

Yonghui Fan, Gang Wang, Natasha Lepore, Yalin Wang
2018 Lecture Notes in Computer Science  
: scaling up to large unlabelled medical datasets 342 AtlasNet: Multi-atlas non-linear deep networks for medical image segmentation 345 Multiple Instance Learning for Heterogeneous Images: Training a CNN  ...  FOR SICKLE CELL DISEASE USING DEFORMABLE U-NET 535 Initialize globally before acting locally: Enabling Landmark-free 3D US to MRI Registration 541 Left Ventricle Segmentation via Optical-Flow-Net from  ... 
doi:10.1007/978-3-030-00931-1_48 pmid:30338317 pmcid:PMC6191198 fatcat:dqhvpm5xzrdqhglrfftig3qejq

ABSORB: Atlas building by self-organized registration and bundling

Hongjun Jia, Guorong Wu, Qian Wang, Dinggang Shen
2010 NeuroImage  
smoother registration path, in general, from each subject image to the final built atlas than other groupwise registration methods.  ...  In this new framework, the global structure, i.e., the relative distribution of subject images is always preserved during the registration process by constraining each subject image to deform only locally  ...  For the tree-based method, its built tree has the height of 5, and thus the segments on each path are no more than 4.  ... 
doi:10.1016/j.neuroimage.2010.03.010 pmid:20226255 pmcid:PMC2862873 fatcat:eqda26vrjffqderdcjwoytkmci

ABSORB: Atlas building by Self-Organized Registration and Bundling

Hongjun Jia, Guorong Wu, Qian Wang, Dinggang Shen
2010 2010 IEEE Computer Society Conference on Computer Vision and Pattern Recognition  
smoother registration path, in general, from each subject image to the final built atlas than other groupwise registration methods.  ...  In this new framework, the global structure, i.e., the relative distribution of subject images is always preserved during the registration process by constraining each subject image to deform only locally  ...  For the tree-based method, its built tree has the height of 5, and thus the segments on each path are no more than 4.  ... 
doi:10.1109/cvpr.2010.5540007 dblp:conf/cvpr/JiaWWS10 fatcat:dlhv7f522jewpctk2i5zqh5vay

A survey of MRI-based medical image analysis for brain tumor studies

Stefan Bauer, Roland Wiest, Lutz-P Nolte, Mauricio Reyes
2013 Physics in Medicine and Biology  
MRI-based medical image analysis for brain tumor studies is gaining attention in recent times due to an increased need for efficient and objective evaluation of large amounts of data.  ...  Then we review the state of the art in segmentation, registration and modeling related to tumorbearing brain images with a focus on gliomas.  ...  This can be used for atlas-based segmentation or for constructing statistical brain tumor atlases.  ... 
doi:10.1088/0031-9155/58/13/r97 pmid:23743802 fatcat:3s6em3e6pjay5dqbntsnt42zbm

Learning Deformable Point Set Registration with Regularized Dynamic Graph CNNs for Large Lung Motion in COPD Patients [article]

Lasse Hansen, Doris Dittmer, Mattias P. Heinrich
2019 arXiv   pre-print
Deformable registration continues to be one of the key challenges in medical image analysis.  ...  While iconic registration methods have started to benefit from the recent advances in medical deep learning, the same does not yet apply for the registration of point sets, e.g. registration based on surfaces  ...  It is widely used for image-guided intervention, motion compensation in radiation therapy, atlas-based segmentation or monitoring of disease progression.  ... 
arXiv:1909.07818v1 fatcat:kp56bj2exrfvbig4ctmnmutjpe
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