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Cortical thickness measurement from magnetic resonance images using partial volume estimation

Maria A. Zuluaga, Oscar Acosta, Pierrick Bourgeat, Marcela Hernández Hoyos, Olivier Salvado, Sébastien Ourselin, Joseph M. Reinhardt, Josien P. W. Pluim
2008 Medical Imaging 2008: Image Processing  
Measurement of the cortical thickness from 3D Magnetic Resonance Imaging (MRI) can aid diagnosis and longitudinal studies of a wide range of neurodegenerative diseases.  ...  We model PV by computing a mixture of pure Gaussian probability distributions and use this estimate to initialize the cortical thickness estimation.  ...  Measurement of the cortical thickness from 3D magnetic resonance (MR) images can aid diagnosis and longitudinal studies of a wide variety of neurodegenerative and psychiatric disorders, such as Alzheimer's  ... 
doi:10.1117/12.770058 dblp:conf/miip/ZuluagaABHSO08 fatcat:etxr33e2xna2hpyfbmpqqlz2hy

Segmentation-free measurement of cortical thickness from MRI

Iman Aganj, Guillermo Sapiro, Neelroop Parikshak, Sarah K. Madsen, Paul M. Thompson
2008 2008 5th IEEE International Symposium on Biomedical Imaging: From Nano to Macro  
Various approach roposed to automate is cortical thickness measurement from Magnetic Resonance ebrospinal fluid he input to the ma Becaus c ying tissue cl iscarding poten We describe our proposed method  ...  Previous methods often perform a binary-valued segmentation of the gray matter before measuring the thickness. e of image noise and partial voluming, such a hard lassification ignores the underl ass probabilities  ...  Index Terms-Cortical thickness measurement, gray matter density, magnetic resonance imaging, soft classification.  ... 
doi:10.1109/isbi.2008.4541324 pmid:25741407 pmcid:PMC4346190 dblp:conf/isbi/AganjSPMT08 fatcat:bcro6dj6jvbwhl5su74mwyqseu

Partial volume effect modeling for segmentation and tissue classification of brain magnetic resonance images: A review

Jussi Tohka
2014 World Journal of Radiology  
Running title Partial volume segmentation in brain MRI Abstract Quantitative analysis of magnetic resonance (MR) brain images are facilitated by the development of automated segmentation algorithms.  ...  This is important for volume quantification and cortical thickness analysis due to the geometrical complexity of human brain structure.  ...  Cortical thickness Cortical thickness is a quantitative measure describing the combined thickness of the layers of the cerebral cortex that can be measured using MRI either using mesh based [6, 50, 51  ... 
doi:10.4329/wjr.v6.i11.855 pmid:25431640 pmcid:PMC4241492 fatcat:kw6hfhyamjhrta6pczwi2pyive

The pattern of trabecular bone microarchitecture in the distal femur of typically developing children and its effect on processing of magnetic resonance images

Christopher M. Modlesky, Daniel G. Whitney, Patrick T. Carter, Brianne M. Allerton, Joshua T. Kirby, Freeman Miller
2014 Bone  
The findings indicate that partial magnetic resonance image sets can be used to provide reasonable estimates of trabecular bone microarchitecture status in the distal femur of typically developing children  ...  Using the resulting mathematical models and the leave-one-out cross-validation analysis, measures of trabecular bone microarchitecture estimated from the 10IM and 5IM partial image sets agreed extremely  ...  We thank the Department of Medical Imaging at the AI duPont Hospital for Children for assistance with the collection of magnetic resonance images.  ... 
doi:10.1016/j.bone.2013.11.009 pmid:24269277 pmcid:PMC4485561 fatcat:bcyjenxtvjet7cdgss3w6w3s6m

Reduced Thickness of Medial Orbitofrontal Cortex in Smokers

Simone Kühn, Florian Schubert, Jürgen Gallinat
2010 Biological Psychiatry  
Methods: We acquired high-resolution magnetic resonance imaging scans from 22 smokers and 21 never-smokers and used FreeSurfer to model the gray-white and pial surfaces for each individual cortex to compute  ...  the distance between these surfaces to obtain a measure of cortical thickness.  ...  Data Analysis Cortical thickness was estimated from the structural magnetic resonance images with FreeSurfer software (http://surfer.nmr. mgh.harvard.edu/) (23, 24), a set of automated tools for reconstruction  ... 
doi:10.1016/j.biopsych.2010.08.004 pmid:20875635 fatcat:bddomxzxujg2xfupwfkbefr3yq

Automatic Delineation of Sulci and Improved Partial Volume Classification for Accurate 3D Voxel-Based Cortical Thickness Estimation from MR [chapter]

Oscar Acosta, Pierrick Bourgeat, Jurgen Fripp, Erik Bonner, Sébastien Ourselin, Olivier Salvado
2008 Lecture Notes in Computer Science  
When using magnetic resonance images (MRI), accuracy may be hampered by artifacts such as partial volume (PV) as the cortex spans only a few voxels.  ...  The aim of this work is to propose a voxel-based cortical thickness estimation method from MR by integrating a mechanism for correcting sulci delineation after an improved partial volume classification  ...  Introduction Automatic measurement of cortical thickness from 3D magnetic resonance (MR) images can aid diagnosis and longitudinal studies of a wide variety of neurodegenerative pathologies, such as Alzheimer's  ... 
doi:10.1007/978-3-540-85988-8_31 fatcat:mrptrrbwsrcvtpx4y5z3dbhptm

EFFICIENT USE OF CEREBRAL CORTICAL THICKNESS TO CORRECT BRAIN MR SEGMENTATION

Thanh-Mai Diep, Pierrick Bourgeat, Sebastien Ourselin
2007 2007 4th IEEE International Symposium on Biomedical Imaging: From Nano to Macro  
In this work, we segment a 3D magnetic resonance image of the brain using an Expectation-Maximization approach.  ...  Efficient, automatic and robust tools for measurement of cerebral cortical thickness would aid diagnosis and longitudinal studies of neurodegenerative disorders.  ...  Measurement of cortical thickness from 3D magnetic resonance (MR) images can aid diagnosis and longitudinal studies of a wide variety of neurodegenerative and psychiatric disorders, such as Alzheimer's  ... 
doi:10.1109/isbi.2007.356921 dblp:conf/isbi/DiepBO07 fatcat:2vwo4f3vh5ar5dftpikvdk5ofy

Longitudinal assessment of mouse renal injury using high-resolution anatomic and magnetization transfer MR imaging

Feng Wang, Rosie Jiang, Keiko Takahashi, John Gore, Raymond C. Harris, Takamune Takahashi, C. Chad Quarles
2014 Magnetic Resonance Imaging  
Cortical and medullary thickness, corticomedullary contrast and Magnetization Transfer Ratio (MTR) were assessed longitudinally.  ...  The MRI measures of renal cortical and medullary atrophy, cortical-medullary differentiation and MTR changes provide an endogenous, noninvasive and quantitative evaluation of renal morphology and tissue  ...  The variation in OM thickness measurements in different region was larger than that of cortex, likely due to the observed severe medullary deformation and partial volume effects resulting from the expansion  ... 
doi:10.1016/j.mri.2014.07.012 pmid:25093632 pmcid:PMC4171209 fatcat:mnb2he76xbdflgbnwgqoywwiva

Brain Atrophy Estimated from Structural Magnetic Resonance Imaging as a Marker of Large-Scale Network-Based Neurodegeneration in Aging and Stroke

Michele Veldsman
2017 Geriatrics  
This review will introduce recent advances in structural magnetic resonance imaging (MRI) acquisition and analyses that have allowed for reliable and reproducible estimates of atrophy in large-scale brain  ...  There is now widespread use of network methods to understand the brain in terms of coordinated brain activity or white matter connectivity.  ...  Measuring Brain Morphometry from Magnetic Resonance Images Clinicians routinely consult structural brain images in the assessment of aging and neurodegenerative disease with the understanding that brain  ... 
doi:10.3390/geriatrics2040034 pmid:31011044 pmcid:PMC6371114 fatcat:i4y2asahn5ez7aqtleo4p7xtre

On the use of a spin-echo based double inversion recovery acquisition for the measurement of cortical brain thickness

Yoonho Nam, Eung Yeop Kim, Dong-Hyun Kim
2011 Journal of Magnetic Resonance Imaging  
Materials and Methods: By using a double inversion recovery (DIR) spin-echo-based sequence, cortical thickness estimates were performed from data acquired from seven healthy volunteers.  ...  Purpose: To determine whether a spin-echo-based sequence, which are inherently insensitive to magnetic field inhomogeneity, can be used for brain cortical thickness measurement studies.  ...  Robust segmentation was achieved using the DIR images. However, thickness estimates from the MPRAGE was smaller compared with estimates obtained from DIR.  ... 
doi:10.1002/jmri.22536 pmid:21509881 fatcat:nnng3qhcbfagvp75sbcobuoyku

On the use of a spin-echo based double inversion recovery acquisition for the measurement of cortical brain thickness

Yoonho Nam, Eung Yeop Kim, Dong-Hyun Kim
2011 Journal of Magnetic Resonance Imaging  
Materials and Methods: By using a double inversion recovery (DIR) spin-echo-based sequence, cortical thickness estimates were performed from data acquired from seven healthy volunteers.  ...  Purpose: To determine whether a spin-echo-based sequence, which are inherently insensitive to magnetic field inhomogeneity, can be used for brain cortical thickness measurement studies.  ...  Robust segmentation was achieved using the DIR images. However, thickness estimates from the MPRAGE was smaller compared with estimates obtained from DIR.  ... 
doi:10.1002/jmri.22765 fatcat:obp4w56ybjao7dlfm2vc3o673y

Effect of in-painting on cortical thickness measurements in multiple sclerosis: A large cohort study

Koushik A. Govindarajan, Sushmita Datta, Khader M. Hasan, Sangbum Choi, Mohammad H Rahbar, Stacey S. Cofield, Gary R. Cutter, Fred D. Lublin, Jerry S. Wolinsky, Ponnada A. Narayana
2015 Human Brain Mapping  
A comprehensive analysis of the effect of lesion in-painting on the estimation of cortical thickness using magnetic resonance imaging was performed on a large cohort of 918 relapsing-remitting multiple  ...  Cortical thickness was measured using the FreeSurfer pipeline with and without in-painting. The effect of in-painting was evaluated using FreeSurfer's paired analysis pipeline.  ...  Lesion Segmentation Image processing and segmentation were performed using an in-house developed pipeline, magnetic resonance image automatic processing Sajja et al., 2006] .  ... 
doi:10.1002/hbm.22875 pmid:26096844 pmcid:PMC4839289 fatcat:3frkjigx55cwnhmwic4t3pobf4

Imaging brain tissue properties in movement disorders

2013 Swiss Archives of Neurology and Psychiatry  
Current magnetic resonance imaging (MRI) derived biomarkers are mostly limited to description of relative changes in brain volume and cortical thickness measured on T1-weighted images failing to provide  ...  In the past two decades magnetic resonance imaging (MRI) has become an established tool to study brain anatomy in movement disorders.  ...  Current magnetic resonance imaging (MRI) derived biomarkers are mostly limited to description of relative changes in brain volume and cortical thickness measured on T1-weighted images failing to provide  ... 
doi:10.4414/sanp.2013.00102 fatcat:arqmfid57ve4nbc2pajdqa43pm

The Role of the Fusiform-Amygdala System in the Pathophysiology of Autism

Isabel Dziobek, Markus Bahnemann, Antonio Convit, Hauke R. Heekeren
2010 Archives of General Psychiatry  
Interventions: We applied an automated measurement to estimate fusiform gyrus cortical thickness and a manual tracing method to obtain amygdala volumes.  ...  Main Outcome Measures: Fusiform gyrus cortical thickness, amygdala volume, emotional face processing.  ...  Magnetic Resonance Imaging For all brain measurements, we used a thin-slice, 3-dimensional, coronal, T1-weighted, spoiled gradient recalled sequence.  ... 
doi:10.1001/archgenpsychiatry.2010.31 pmid:20368515 fatcat:2mx7wgl62bg6lolbirnj52wcoi

Spatial patterns of correlation between cortical amyloid and cortical thickness in a tertiary clinical population with memory deficit

Jagan A. Pillai, Mykol Larvie, Jacqueline Chen, Anna Crawford, Jeffery L. Cummings, Stephen E. Jones
2020 Scientific Reports  
AbstractTo estimate regional Alzheimer disease (AD) pathology burden clinically, analysis methods that enable tracking brain amyloid or tau positron emission tomography (PET) with magnetic resonance imaging  ...  partial volume correction.  ...  Acknowledgements We thank Frank DiFilippo, PhD, for his review of physics aspects regarding nuclear medicine imaging, and Megan Griffiths for editorial support.  ... 
doi:10.1038/s41598-020-77503-2 pmid:33244036 fatcat:w27x3j6mjvf4bnzua6xmmlunci
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