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Geometrically Accurate Topology-Correction of Cortical Surfaces Using Nonseparating Loops

Florent Segonne, Jenni Pacheco, Bruce Fischl
2007 IEEE Transactions on Medical Imaging  
In this paper, we focus on the retrospective topology correction of surfaces. We propose a technique to accurately correct the spherical topology of cortical surfaces.  ...  The topology of each defect is then corrected by opening and sealing the surface along a set of nonseparating loops that are selected in a Bayesian framework.  ...  ACKNOWLEDGMENT This paper is part of the National Alliance for Medical Image Computing (NAMIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research under Grant U54  ... 
doi:10.1109/tmi.2006.887364 pmid:17427739 fatcat:ci4n7sdzm5dibj2az7ztdaxhya

Removing excess topology from isosurfaces

Zoë Wood, Hugues Hoppe, Mathieu Desbrun, Peter Schröder
2004 ACM Transactions on Graphics  
However, isosurfaces often contain many topological errors in the form of tiny handles.  ...  Noise inherent in the acquisition process can lead to geometrical and topological errors. Reducing geometrical errors during reconstruction is well studied.  ...  for cortex labeling collaboration; Steven Gortler for conversations about topology and Eitan Grinspun for his assistance with editing.  ... 
doi:10.1145/990002.990007 fatcat:fbmgfsd5vjcznirlmepjnuwvre

A combined voxel and surface based method for topology correction of brain surfaces

Florence Gris, Jean-Marie Favreau, Oscar Acosta, Vincent Barra, Olivier Salvado, Benoit M. Dawant, David R. Haynor
2010 Medical Imaging 2010: Image Processing  
The topology of the binary segmentation is first corrected using a set of topology preserving operators applied sequentially.  ...  Using the corrected segmentation, a marching cubes mesh is then generated and the tunnels and handles resulting from the meshing are finally removed with an algorithm based on the detection of nonseparating  ...  This method is really efficient to obtain a volume genus zero with accurate surface using holes filling. In order to delete this topological defect the method uses a surfacic skeleton.  ... 
doi:10.1117/12.844624 dblp:conf/miip/GrisFABS10 fatcat:n4uqkdaqfjbelj6ofxq56llj5y

Topological correction of brain surface meshes using spherical harmonics

Rachel Aine Yotter, Robert Dahnke, Paul M. Thompson, Christian Gaser
2010 Human Brain Mapping  
Automated generation of cortical surface meshes from 3D brain MRI often leads to topological defects and geometrical artifacts that must be corrected to permit subsequent analysis.  ...  V C 2010 Wiley-Liss, Inc. r Cortical Surface Topology Correction r r 7 r  ...  The correction can then be carried out using purely surface-based methods such as genetic algorithms [Ségonne et al., 2005] , retessellation of the defect [Fischl et al., 2001] , or nonseparating loops  ... 
doi:10.1002/hbm.21095 pmid:20665722 fatcat:et3yndg3xbaqvnx5xstwllmwjq

Topological Correction of Brain Surface Meshes Using Spherical Harmonics [chapter]

Rachel Aine Yotter, Robert Dahnke, Christian Gaser
2009 Lecture Notes in Computer Science  
Automated generation of cortical surface meshes from 3D brain MRI often leads to topological defects and geometrical artifacts that must be corrected to permit subsequent analysis.  ...  V C 2010 Wiley-Liss, Inc. r Cortical Surface Topology Correction r r 7 r  ...  The correction can then be carried out using purely surface-based methods such as genetic algorithms [Ségonne et al., 2005] , retessellation of the defect [Fischl et al., 2001] , or nonseparating loops  ... 
doi:10.1007/978-3-642-04271-3_16 fatcat:grkyrwvk55hubbq2labcfmetdu

2007 Index IEEE Transactions on Medical Imaging Vol. 26

2007 IEEE Transactions on Medical Imaging  
Tohka, J., +, TMI May 2007 696-711 Geometrically Accurate Topology-Correction of Cortical Surfaces Using Nonseparating Loops.  ...  Tohka, J., +, TMI May 2007 696-711 Geometrically Accurate Topology-Correction of Cortical Surfaces Using Nonseparating Loops.  ... 
doi:10.1109/tmi.2007.912905 fatcat:4kodjew23ffjvebqt5fopjo5oa

The Human Connectome Project's neuroimaging approach

Matthew F Glasser, Stephen M Smith, Daniel S Marcus, Jesper L R Andersson, Edward J Auerbach, Timothy E J Behrens, Timothy S Coalson, Michael P Harms, Mark Jenkinson, Steen Moeller, Emma C Robinson, Stamatios N Sotiropoulos (+4 others)
2016 Nature Neuroscience  
the natural geometry of cortical and subcortical structures; (5) accurately align corresponding brain areas across subjects and studies; (6) analyze data using neurobiologically accurate brain parcellations  ...  Widespread adoption of this paradigm should accelerate progress in understanding the brain in health and disease.  ...  We thank the other investigators and staff members of the Human Connectome Project consortium for invaluable contributions to data acquisition, analysis, and sharing.  ... 
doi:10.1038/nn.4361 pmid:27571196 fatcat:wwg4h7gmw5eshc5bc3zsmt6zmy

Normative morphometric data for cerebral cortical areas over the lifetime of the adult human brain

Olivier Potvin, Louis Dieumegarde, Simon Duchesne
2017 NeuroImage  
Proper normative data of anatomical measurements of cortical regions, allowing to quantify brain abnormalities, are lacking.  ...  We developed norms for regional cortical surface areas, thicknesses, and volumes based on cross-sectional MRI scans from 2713 healthy individuals aged 18 to 94 years using 23 samples provided by 21 independent  ...  Geometrically accurate topology-correction of cortical surfaces using nonseparating loops. IEEE Trans Med Imaging 26, 518-529. Sheikh, J.I., Yesavage, J.A., 1986.  ... 
doi:10.1016/j.neuroimage.2017.05.019 pmid:28512057 fatcat:bfagdwgpmzhcpftifhmro7w33e

The Volume of Hippocampal Subfields in Relation to Decline of Memory Recall Across the Adult Lifespan

Fenglian Zheng, Dong Cui, Li Zhang, Shitong Zhang, Yue Zhao, Xiaojing Liu, Chunhua Liu, Zhengmei Li, Dongsheng Zhang, Liting Shi, Zhipeng Liu, Kun Hou (+3 others)
2018 Frontiers in Aging Neuroscience  
Spearman correlation with false discovery rate correction was used to investigate the relationship between memory recall scores and hippocampal subfield volumes.  ...  The volumes of hippocampal subfields were obtained using Freesurfer software.  ...  Geometrically accurate topology-correction of cortical surfaces using nonseparating loops. IEEE Trans. Med.  ... 
doi:10.3389/fnagi.2018.00320 pmid:30364081 pmcid:PMC6191512 fatcat:aehzo7mlxrd6lpswx7otjx6i34

Running Neuroimaging Applications on Amazon Web Services: How, When, and at What Cost?

Tara M. Madhyastha, Natalie Koh, Trevor K. M. Day, Moises Hernández-Fernández, Austin Kelley, Daniel J. Peterson, Sabreena Rajan, Karl A. Woelfer, Jonathan Wolf, Thomas J. Grabowski
2017 Frontiers in Neuroinformatics  
Geometrically accurate topology-correction of cortical surfaces using nonseparating loops. IEEE Trans. Med.  ...  Automated manifold surgery: constructing geometrically accurate and topologically correct models of the human cerebral cortex. IEEE Trans. Med.  ... 
doi:10.3389/fninf.2017.00063 pmid:29163119 pmcid:PMC5675877 fatcat:bui6h6yzavbujplxwzv23e5lmy

Structural and Functional Brain Imaging in Long-Term Survivors of Childhood Acute Lymphoblastic Leukemia Treated with Chemotherapy: A Systematic Review

Kellen Gandy, Matthew A Scoggins, Lisa M Jacola, Molly Litten, Wilburn E Reddick, Kevin R Krull
2021 JNCI Cancer Spectrum  
Background The effect of chemotherapy on brain development in long-term survivors of pediatric acute lymphoblastic leukemia (ALL) was systematically reviewed.  ...  Conclusion While the neurotoxic effects of cancer treatment are reduced in the absence of cranial radiation, survivors treated on chemotherapy-only protocols still display long-term alterations in brain  ...  Geometrically accurate topology-correction of cortical surfaces using nonseparating loops. IEEE transactions on medical imaging. 2007;26(4):518-529. 22.  ... 
doi:10.1093/jncics/pkab069 pmid:34514328 pmcid:PMC8421809 fatcat:6xbbmjj7xbhofoqxureun6pyxe

25th Annual Computational Neuroscience Meeting: CNS-2016

Tatyana O. Sharpee, Alain Destexhe, Mitsuo Kawato, Vladislav Sekulić, Frances K. Skinner, Daniel K. Wójcik, Chaitanya Chintaluri, Dorottya Cserpán, Zoltán Somogyvári, Jae Kyoung Kim, Zachary P. Kilpatrick, Matthew R. Bennett (+597 others)
2016 BMC Neuroscience  
Part of this complexity is related to the number of different cell types that work together to encode stimuli.  ...  BMC Neuroscience 2016, 17(Suppl 1):A1 Neural circuits are notorious for the complexity of their organization.  ...  Acknowledgements: The work of JB, RG, and SMC was supported in part by R01MH1006674 from the National Institutes of Health.  ... 
doi:10.1186/s12868-016-0283-6 pmid:27534393 pmcid:PMC5001212 fatcat:bt45etzj2bbolfcxlxo7hlv6ju

Implementation of Fog computing for reliable E-health applications

Razvan Craciunescu, Albena Mihovska, Mihail Mihaylov, Sofoklis Kyriazakos, Ramjee Prasad, Simona Halunga
2015 2015 49th Asilomar Conference on Signals, Systems and Computers  
Machine-type communications is seen as one of the main drivers of 5G.  ...  In addition, we will improve on the performance of such Coded ALOHA protocols in terms of the resource efficiency.  ...  , nonseparable) regularizer.  ... 
doi:10.1109/acssc.2015.7421170 dblp:conf/acssc/CraciunescuMMKP15 fatcat:qm6mki5z6bcvrfimkmqjyrxaxm

Neural network modeling of a dolphin's sonar discrimination capabilities

Lars N. Andersen, A. René Rasmussen, Whitlow W. L. Au, Paul E. Nachtigall, Herbert Roitblat
1994 Journal of the Acoustical Society of America  
Ray tracing is used to calculate the acoustical and structural response of smooth, elastic shells of nonseparable shape.  ...  Localization performance for a shallow-water source localization problem is presented using probabilities of correct localization.  ...  By including the flexural as well as membrane waves, the ray model accurately predicts the induced forces, the shell displacements, and the surface and far-zone pressures in the frequency range of interest  ... 
doi:10.1121/1.410770 fatcat:ioiiov6bmjdi7kiflait5dhdfe

Neural network modeling of a dolphin's sonar discrimination capabilities

Whitlow W. L. Au, Lars N. Andersen, A. René Rasmussen, Herbert L. Roitblat, Paul E. Nachtigall
1995 Journal of the Acoustical Society of America  
Ray tracing is used to calculate the acoustical and structural response of smooth, elastic shells of nonseparable shape.  ...  Localization performance for a shallow-water source localization problem is presented using probabilities of correct localization.  ...  By including the flexural as well as membrane waves, the ray model accurately predicts the induced forces, the shell displacements, and the surface and far-zone pressures in the frequency range of interest  ... 
doi:10.1121/1.413700 pmid:7608403 fatcat:m3nunzs4wfflhfl27n4shdn2n4
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