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A Longitudinal Quantitative MRI Study of Community-Based Patients with Chronic Epilepsy and Newly Diagnosed Seizures: Methodology and Preliminary Findings

R.S.N. Liu, L. Lemieux, G.S. Bell, P.A. Bartlett, J.W.A.S. Sander, S.M. Sisodiya, S.D. Shorvon, J.S. Duncan
2001 NeuroImage  
Non-uniformity correction was performed using the automatic method, N3 (2), followed by automatic segmentation of the corrected scans (3, 4), resulting in an accurate delineation of the brain and cerebrospinal  ...  Baseline and follow-up scans were performed on the same 1.5T GE Horizon MRI scanner using identical scan acquisition sequences.  ...  Non-uniformity correction was performed using the automatic method, N3 (2), followed by automatic segmentation of the corrected scans (3, 4), resulting in an accurate delineation of the brain and cerebrospinal  ... 
doi:10.1006/nimg.2001.0773 pmid:11525333 fatcat:ex4chcv45vbidgjb7j42t4spqe

Automatic segmentation of newborn brain MRI

Neil I. Weisenfeld, Simon K. Warfield
2009 NeuroImage  
Quantitative brain tissue segmentation from newborn MRI offers the possibility of improved clinical decision making and diagnosis, new insight into the mechanisms of disease, and new methods for the evaluation  ...  Because manual interaction is time consuming and introduces both bias and variability, we have developed a novel automatic segmentation algorithm for brain MRI of newborn infants.  ...  Hoai-Huong Tran for drawing manual segmentations.  ... 
doi:10.1016/j.neuroimage.2009.04.068 pmid:19409502 pmcid:PMC2945911 fatcat:74ndovbvijawlhtw5eafrg5qdu

Unsupervised Segmentation Algorithms' Implementation in ITK for Tissue Classification via Human Head MRI Scans [article]

Shadman Sakib, Md. Abu Bakr Siddique
2020 arXiv   pre-print
For this purpose, 5 grayscale head MRI scans are provided. In order of classifying brain tissues, three algorithms are used.  ...  Magnetic Resonance Imaging (MRI) is of great importance in tissue classification especially in the areas of brain tissue classification which is able to recognize anatomical areas of interest such as surgical  ...  MRI segmentation is still a challenging task due to some difficulties of MRI such as intensity inhomogeneity, partial volume effects, and noise.  ... 
arXiv:1902.11131v4 fatcat:jbr6nz3dd5hu5pdj5uwfw5cmru

Segmentation of Cortical MS Lesions on MRI Using Automated Laminar Profile Shape Analysis [chapter]

Christine L. Tardif, D. Louis Collins, Simon F. Eskildsen, John B. Richardson, G. Bruce Pike
2010 Lecture Notes in Computer Science  
Cortical multiple sclerosis lesions are difficult to detect in magnetic resonance images due to poor contrast with surrounding grey matter, spatial variation in healthy grey matter and partial volume effects  ...  The method is applied to a high-resolution quantitative magnetic resonance data set from a fixed post mortem multiple sclerosis brain, and validated using histology.  ...  The non-uniformity corrected MT-weighted SPGR image was used in combination with the MTR map for discrete tissue classification [14] .  ... 
doi:10.1007/978-3-642-15711-0_23 fatcat:e4rypqttebcn7imoz5u3abrwva

Segmentation of neuroanatomy in magnetic resonance images

Andrew Simmons, Simon R. Arridge, G. J. Barker, Paul S. Tofts, Murray H. Loew
1992 Medical Imaging VI: Image Processing  
All rights reserved INFORMATION TO ALL USERS The quality of this reproduction is d e p e n d e n t upon the quality of the copy subm itted.  ...  Image non-uniformity correction is accomplished using scans of a uniform glycol phantom.  ...  MRI segmentation because of the effect of RF non-uniformities, noise and inherent tissue heterogeneity.  ... 
doi:10.1117/12.59406 fatcat:rbchl46uffcj5cysrho2pr2ewy

Application of MRI-based partial-volume correction to the analysis of PET images of mu-opioid receptors using statistical parametric mapping

Badreddine Bencherif, Martin J Stumpf, Jonathan M Links, James J Frost
2004 Journal of Nuclear Medicine  
In the presence of enlarged cerebrospinal fluid spaces or regions of cortical neuronal loss, a significant underestimation of gray-matter radioactivity concentration due to the resulting partial-volume  ...  Their effect on PET quantification has been assessed using regions of interest and non-operator-dependent voxel-based analyses such as statistical parametric mapping (SPM), although the mechanisms that  ...  This work was supported by grants R01 AA11855-01, R01 AA11872-01A1, R01 DA12274-03, and R01 DA22774-03 from the National Institutes of Health and the National Institute on Drug Abuse.  ... 
pmid:15001679 fatcat:ihll2nvas5c2rmirfit4nsxd4i

Highly Accurate Segmentation of Brain Tissue and Subcortical Gray Matter from Newborn MRI [chapter]

Neil I. Weisenfeld, Andrea U. J. Mewes, Simon K. Warfield
2006 Lecture Notes in Computer Science  
Segmentation of infant brain MRI is particularly challenging when compared with the segmentation of images acquired from older children and adults.  ...  The segmentation of newborn brain MRI is important for assessing and directing treatment options for premature infants at risk for developmental disorders, abnormalities, or even death.  ...  Discussion and Conclusion Automated segmentation of brain MRI has been pursued at length with promising results (e.g. [15, 16, 17] ).  ... 
doi:10.1007/11866565_25 fatcat:7vkjyddeb5alrpsfma5v7k66gq

Eyeing the Human Brain's Segmentation Methods

Lilian Chirukawala et al., Lilian Chirukawala et al.,
2019 International Journal of Electrical and Electronics Engineering Research  
Among other uses, it helps us perform the following tasks in images: to measure and visualize the anatomical structures of the brain; to highlight brain structural changes; and to delineate regions with  ...  To do so, we have extensively established the most augmented introduction of basic segmentation concepts, and deeply explained the fundamental differences of brain-MRI preprocessing pipelines.  ...  INTRODUCTION Segmentation of MRI-brain scans have played a key role in many studies in recent years.  ... 
doi:10.24247/ijeeerjun20195 fatcat:5cacelevgvci3n5wyiq6lr2jay

The feasibility of quantitative MRI of perivascular spaces at 7 T

Kejia Cai, Rongwen Tain, Sandhitsu Das, Frederick C. Damen, Yi Sui, Tibor Valyi-Nagy, Mark A. Elliott, Xiaohong J. Zhou
2015 Journal of Neuroscience Methods  
, k-means clustering, etc, producing quantitative results of white matter PVS volume densities.  ...  This study tests the feasibility of imaging and quantifying brain PVS with an ultrahigh 7T whole-body MRI scanner.  ...  The authors acknowledge Department of Radiology and the 3T Program of the Center of Magnetic Resonance Research at the University of Illinois at Chicago College of Medicine for research support.  ... 
doi:10.1016/j.jneumeth.2015.09.001 pmid:26358620 pmcid:PMC4651825 fatcat:tcwimnihtjc3fcfqybaigyoiee

Motion-Correction Enabled Ultra-High Resolution In-Vivo 7T-MRI of the Brain

Christian Federau, Daniel Gallichan, Fa-Hsuan Lin
2016 PLoS ONE  
Results Images of various brain structures are revealed at unprecedented quality for in-vivo MRI.  ...  Conclusions Appropriate motion-correction allows MRI scans to be performed with extended scan times enabling exceptionally high resolution scans with high image quality, with the use of a 7T scanner allowing  ...  separately for the raw k-space data from each RF channel of the respective host sequence, accounting for rotations by using the 3D non-uniform fast Fourier transform algorithm [12] implemented by Jeffrey  ... 
doi:10.1371/journal.pone.0154974 pmid:27159492 pmcid:PMC4861298 fatcat:bifqwgkeejhctaqr2273jv5mqu

ADC histograms predict response to anti-angiogenic therapy in patients with recurrent high-grade glioma

Martha Nowosielski, Wolfgang Recheis, Georg Goebel, Özgür Güler, Gerd Tinkhauser, Herwig Kostron, Michael Schocke, Thaddaeus Gotwald, Günther Stockhammer, Markus Hutterer
2010 Neuroradiology  
Applying image segmentation, volumes of contrast-enhanced lesions in T1 sequences and of hyperintense T2 lesions (hT2) were calculated. hT2 were defined as regions of interest (ROI) and registered to corresponding  ...  high-grade gliomas (rHGG) as compared to standard magnetic resonance imaging (MRI).  ...  Conflict of Interest We declare that we have no conflict of interest.  ... 
doi:10.1007/s00234-010-0808-0 pmid:21125399 pmcid:PMC3063200 fatcat:opp7ezyf2zh7jonjzoba2c3a2e

A Robust Statistical Method for Brain Magnetic Resonance Image Segmentation [chapter]

Bo Qin, JingHua Wen, Ming Chen
2005 Lecture Notes in Computer Science  
In this paper, a robust statistical model-based brain MRI image segmentation method is presented. The MRI images are modeled by Gaussian mixture model.  ...  The proposed image segmentation methods have been tested using phantom simulated MRI data. The experimental results show the proposed method is effective and robust.  ...  The main artifacts affecting brain MRI scans such as Intensity nonuniformity, and image Noise and Partial volume effect.  ... 
doi:10.1007/11578079_6 fatcat:xbfgugcgh5es5bc7rkibx4okwe

Traumatic brain injury: a comparison of diffusion and volumetric magnetic resonance imaging measures

N J Bourke, M Yanez Lopez, P O Jenkins, S De Simoni, J H Cole, P Lally, E Mallas, H Zhang, D J Sharp
2021 Brain Communications  
Here we compare the performance of diffusion tensor imaging, neurite orientation dispersion and density-imaging and volumetric measures of brain atrophy in the identification of white matter abnormalities  ...  Lower neurite density index may be a useful metric for examining slower processing speed.  ...  Conflict of interest statement Nothing to report.  ... 
doi:10.1093/braincomms/fcab006 pmid:33981994 pmcid:PMC8105496 fatcat:iiqueblp2vgjjat5lrnkulla4i

Case Report: An MRI Traumatic Brain Injury Longitudinal Case Study at 7 Tesla: Pre- and Post-injury Structural Network and Volumetric Reorganization and Recovery

Stephanie S. G. Brown, Kristen Dams-O'Connor, Eric Watson, Priti Balchandani, Rebecca E. Feldman
2021 Frontiers in Neurology  
the structural effects of traumatic brain injury for the first time using pre-injury and post-injury 7 Tesla MRI longitudinal data.  ...  this investigation were high spatial resolution structural brain metrics including volumetric assessment and connection density of the white matter connectome.Results: At the first scan timepoint post-injury  ...  All MRI scanning was performed using the same Siemens 7T scanner.  ... 
doi:10.3389/fneur.2021.631330 pmid:34079509 pmcid:PMC8165156 fatcat:xw5r3lnbdbdkpj4fomauxl2v2i

Fully-Automated μMRI Morphometric Phenotyping of the Tc1 Mouse Model of Down Syndrome

Nick M. Powell, Marc Modat, M. Jorge Cardoso, Da Ma, Holly E. Holmes, Yichao Yu, James O'Callaghan, Jon O. Cleary, Ben Sinclair, Frances K. Wiseman, Victor L. J. Tybulewicz, Elizabeth M. C. Fisher (+3 others)
2016 PLoS ONE  
We show an unexpected increase in Tc1 total intracranial volume and, controlling for this, local volume and grey matter density reductions in the Tc1 brain compared to the wild-types, most prominently  ...  We show the application of freely available open-source software developed for clinical MRI analysis to mouse brain data: NiftySeg for segmentation and NiftyReg for registration, and discuss atlases and  ...  Intensity non-uniformity correction (NUC) We applied intensity non-uniformity correction within 5-voxel dilated masks using N4ITK [42], found to reliably correct the hardware-induced, low frequency bias  ... 
doi:10.1371/journal.pone.0162974 pmid:27658297 pmcid:PMC5033246 fatcat:wjr7ooarezgo7b4i4jaxekixje
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