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Fusion of white and gray matter geometry: A framework for investigating brain development

Peter Savadjiev, Yogesh Rathi, Sylvain Bouix, Alex R. Smith, Robert T. Schultz, Ragini Verma, Carl-Fredrik Westin
2014 Medical Image Analysis  
In this paper, we propose a joint investigation of gray and white matter morphology by combining geometrical information from white and the gray matter.  ...  We then incorporate this method into a novel framework for "fusing" white and gray matter geometrical information.  ...  I was involved in the development of: • a Slicer Extension for advanced multi-tensor tractography in diffusion MRI data based on the Kalman filter framework. • a Slicer Extension for computing brain connectivity  ... 
doi:10.1016/ pmid:25066750 pmcid:PMC4162846 fatcat:ul4n7c47knazbdoykjcbggjo54

Feature-Based Fusion of Medical Imaging Data

Vince D. Calhoun, Tulay Adali
2009 IEEE Transactions on Information Technology in Biomedicine  
The acquisition of multiple brain imaging types for a given study is a very common practice.  ...  We describe the approach in detail and provide examples of how it has been used for different fusion tasks.  ...  Adalı is a Fellow of the AIMBE and a Senior Member of the IEEE.  ... 
doi:10.1109/titb.2008.923773 pmid:19273016 pmcid:PMC2737598 fatcat:r56vewzjjfh7hmscyfld6kti4i

Resting State fMRI-Guided Fiber Clustering [chapter]

Bao Ge, Lei Guo, Jinglei Lv, Xintao Hu, Junwei Han, Tuo Zhang, Tianming Liu
2011 Lecture Notes in Computer Science  
Specifically, we represent the functional identity of a white matter fiber by two resting state fMRI (rsfMRI) time series extracted from the two gray matter voxels to which the fiber connects.  ...  Fiber clustering is a prerequisite step towards tract-based analysis of white mater integrity via diffusion tensor imaging (DTI) in various clinical neuroscience applications.  ...  gray matter and white matter are relatively low.  ... 
doi:10.1007/978-3-642-23629-7_19 fatcat:odcsbw56pjcdtojhfgjgvzd37a

Medical image segmentation with wavelet transform and information fusion

Wei Wan, Guoping Zhang, Minghong Chen, Minmin Liu, Chung-Sheng Li, Minerva M. Yeung
2005 Electronic Imaging and Multimedia Technology IV  
A novel method providing a supervised processing of medical image for segmentation is presented.  ...  In the processing, both texture and gray variation information are used inside the tissue regions, and only gradation information is used near the edges of regions.  ...  Different area has its own texture features that denote different tissue types (head, the brain white matter, the brain gray matter). 2.  ... 
doi:10.1117/12.570544 fatcat:gwawm4bixrbylelvlirw75tuu4

System for Integrated Neuroimaging Analysis and Processing of Structure

Bennett A. Landman, John A. Bogovic, Aaron Carass, Min Chen, Snehashis Roy, Navid Shiee, Zhen Yang, Bhaskar Kishore, Dzung Pham, Pierre-Louis Bazin, Susan M. Resnick, Jerry L. Prince
2012 Neuroinformatics  
Mapping brain structure in relation to neurological development, function, plasticity, and disease is widely considered to be one of the most essential challenges for opening new lines of neuro-scientific  ...  Recent developments with MRI analysis of structural connectivity, anatomical brain segmentation, cortical surface parcellation, and functional imaging have yielded fantastic advances in our ability to  ...  Acknowledgments The authors are appreciative of the careful feedback from the anonymous reviewers and editor (Dr. David Kennedy).  ... 
doi:10.1007/s12021-012-9159-9 pmid:22932976 pmcid:PMC3511612 fatcat:krgqmregs5hqnm3isklageiqi4

Striola magica. A functional explanation of otolith geometry

Mariella Dimiccoli, Benoît Girard, Alain Berthoz, Daniel Bennequin
2013 Journal of Computational Neuroscience  
We propose a mathematical and computational model that explains the necessity of this amazing geometry for the striola to be able to carry out its function.  ...  Otolith end organs of vertebrates sense linear accelerations of the head and gravitation. The hair cells on their epithelia are responsible for transduction.  ...  They increase from white over gray to black and were normalized with respect to the largest density found on one of the epithelia.  ... 
doi:10.1007/s10827-013-0444-x pmid:23588587 fatcat:332h5lgmbrc25n4mcu6ztsc3ha

Towards inference of human brain connectivity from MR diffusion tensor data

C. Poupon, J.-F. Mangin, C.A. Clark, V. Frouin, J. Régis, D. Le Bihan, I. Bloch
2001 Medical Image Analysis  
This paper describes a method to infer the connectivity induced by white matter fibers in the living human brain.  ...  The regularization stems from an analogy between white matter organization and spaghetti plates.  ...  geometry of white matter where Z is a normalizing constant and V are potential c illustrated by a brain dissection (The Virtual Hospital, University of functions defined on interaction cliques.  ... 
doi:10.1016/s1361-8415(00)00030-x pmid:11231173 fatcat:pbwg55qj7fh4jlenlkcao3ay5e

Infant FreeSurfer: An automated segmentation and surface extraction pipeline for T1-weighted neuroimaging data of infants 0-2 years [article]

Lilla Zöllei, Juan Eugenio Iglesias, Yangming Ou, P. Ellen Grant, Bruce Fischl
2020 arXiv   pre-print
The development of automated tools for brain morphometric analysis in infants has lagged significantly behind analogous tools for adults.  ...  The algorithm relies on a single channel of T1-weighted MR images to achieve automated segmentation of cortical and subcortical brain areas, producing volumes of subcortical structures and surface models  ...  gray matter, white matter, deep nuclear gray matter, cerebellum, brainstem, cerebrospinal fluid (CSF), hippocampus and amygdala.  ... 
arXiv:2001.03091v1 fatcat:j37zvfyywbclpbt6rr2knukg4m

Large-scale evaluation of ANTs and FreeSurfer cortical thickness measurements

Nicholas J. Tustison, Philip A. Cook, Arno Klein, Gang Song, Sandhitsu R. Das, Jeffrey T. Duda, Benjamin M. Kandel, Niels van Strien, James R. Stone, James C. Gee, Brian B. Avants
2014 NeuroImage  
ANTs is shown to have a higher predictive performance than FreeSurfer for both of these measures.  ...  Many studies of the human brain have explored the relationship between cortical thickness and cognition, phenotype, or disease.  ...  Since cortical thickness estimation only requires the cortical gray and white matter, the deep gray and white matter (both labels and posterior maps) are combined to form a single "white matter" set.  ... 
doi:10.1016/j.neuroimage.2014.05.044 pmid:24879923 fatcat:hinkjpkcubbk5btt5qe4pps64u

Mechanics of the brain: perspectives, challenges, and opportunities

Alain Goriely, Marc G. D. Geers, Gerhard A. Holzapfel, Jayaratnam Jayamohan, Antoine Jérusalem, Sivabal Sivaloganathan, Waney Squier, Johannes A. W. van Dommelen, Sarah Waters, Ellen Kuhl
2015 Biomechanics and Modeling in Mechanobiology  
The human brain is the continuous subject of extensive investigation aimed at understanding its behavior and function.  ...  All about the brain. John Cleese. A. Goriely (physiological activity of the brain.  ...  White matter was stiffer than gray matter in compression and shear, and directional dependency was observed in white matter under shear.  ... 
doi:10.1007/s10237-015-0662-4 pmid:25716305 pmcid:PMC4562999 fatcat:fzay725anncctcjtuj2r2f2xfq

Regulation of Central Nervous System Myelination in Higher Brain Functions

Mara Nickel, Chen Gu
2018 Neural Plasticity  
However, the mechanism and function of these changes remain poorly understood. Myelin regulation represents a new form of neural plasticity.  ...  More extensive investigations are needed in this important but underexplored research field, in order to shed light on how higher brain functions and myelination interplay in the hippocampus and prefrontal  ...  James Rice and Mr. Davin Packer for editing the manuscript. This work was supported in part by grants from NIH (R01NS093073 and R21AA024873) to Chen Gu.  ... 
doi:10.1155/2018/6436453 pmid:29692804 pmcid:PMC5859868 fatcat:m2jpjdem7zh4di4jrf4omodju4

Efficient Morphometric Techniques in Alzheimer's Disease Detection: Survey and Tools

Vinutha N., P. Deepa Shenoy, P. Deepa Shenoy, K.R. Venugopal
2016 Neuroscience International  
The development of advance techniques in the multiple fields such as image processing, data mining and machine learning are required for the early detection of Alzheimer's Disease (AD) and to prevent the  ...  But in recent years, the main focus of researchers is towards the FBM and SBM to overcome the disadvantage of group analysis that existed in VBM and DBM.  ...  The corresponding author confirms that all of the other authors have read and approved the manuscript and there are no ethical issues involved.  ... 
doi:10.3844/amjnsp.2016.19.44 fatcat:3zeb2s5pjzfv7mptqi7cy2a3au

Fractal-based brain tumor detection in multimodal MRI

Khan M. Iftekharuddin, Jing Zheng, Mohammad A. Islam, Robert J. Ogg
2009 Applied Mathematics and Computation  
In this work, we investigate the effectiveness of fusing two novel texture features along with intensity in multimodal magnetic resonance (MR) images for pediatric brain tumor segmentation and classification  ...  For a total of 204 T1 contrast-enhanced, T2 and FLAIR MR images obtained from nine different pediatric patients, our successful tumor segmentation is 100%.  ...  Jude Children's Research Hospital for providing the pediatric brain MR images for this work.  ... 
doi:10.1016/j.amc.2007.10.063 fatcat:pdib5sqyxvfolinuflwik26ggu

Multimodal neuroimaging computing: a review of the applications in neuropsychiatric disorders

Sidong Liu, Weidong Cai, Siqi Liu, Fan Zhang, Michael Fulham, Dagan Feng, Sonia Pujol, Ron Kikinis
2015 Brain Informatics  
Research in this area is growing exponentially, and so it is an appropriate time to review the current and future development of this emerging area.  ...  Multimodal neuroimaging computing enables the visualization and quantitative analysis of the alterations in brain structure and function, and has reshaped how neuroscience research is carried out.  ...  , and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made.  ... 
doi:10.1007/s40708-015-0019-x pmid:27747507 pmcid:PMC4737664 fatcat:6tbjyaq6znfrbazefmm3af3x5a

ENIGMA-Viewer: interactive visualization strategies for conveying effect sizes in meta-analysis

Guohao Zhang, Peter Kochunov, Elliot Hong, Sinead Kelly, Christopher Whelan, Neda Jahanshad, Paul Thompson, Jian Chen
2017 BMC Bioinformatics  
a common framework though which results can be compared, and combined through unbiased meta-analyses as performed in the ENIGMA (Enhancing  ...  The tool incorporates visualization design principles such as focus+context and visual data fusion to enable users to better understand the statistics on brain structures.  ...  Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation and National  ... 
doi:10.1186/s12859-017-1634-8 pmid:28617224 pmcid:PMC5471941 fatcat:ptoabpt2trhizhjlgzbt32ov5u
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