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Longitudinal characterization of brain atrophy of a Huntington's disease mouse model by automated morphological analyses of magnetic resonance images

Jiangyang Zhang, Qi Peng, Qing Li, Neda Jahanshad, Zhipeng Hou, Mali Jiang, Naoki Masuda, Douglas R. Langbehn, Michael I. Miller, Susumu Mori, Christopher A. Ross, Wenzhen Duan
2010 NeuroImage  
In this paper, we describe a tool for automated segmentation and voxel-based morphological analyses of the mouse brains.  ...  Comparison between ex vivo and in vivo MRI suggests that the ex vivo end-point measurement of brain morphology is also a valid approach except for the morphology of the ventricles.  ...  Pamela Talalay for her dedicated editorial assistance. This research was supported by a grant from the CHDI Inc Foundation (to W. Duan), NINDS NS16375 (to CAR), NIH EB003543 and NIH ES012665 (to S.  ... 
doi:10.1016/j.neuroimage.2009.10.027 pmid:19850133 pmcid:PMC2929697 fatcat:ot4a63rycrc5bp5fxh2w3lxhxe

Fully-Automated Quantification of Regional Brain Volumes for Improved Detection of Focal Atrophy in Alzheimer Disease

J.B. Brewer, S. Magda, C. Airriess, M.E. Smith
2008 American Journal of Neuroradiology  
Volumetric analysis of structural MR images of the brain may provide quantitative evidence of neurodegeneration and help identify patients at risk for rapid clinical deterioration.  ...  This note describes tests of a fully automated MR imaging postprocessing system for volumetric analysis of structures (such as the hippocampus) known to be affected in early Alzheimer disease (AD).  ...  Both of these needs might be better addressed by efficient methods for the quantitative measurement of atrophy in the living brain.  ... 
doi:10.3174/ajnr.a1402 pmid:19112065 pmcid:PMC5947999 fatcat:hke4ksctgbf3zkylgy2tdhojfm

Whole-brain atrophy in multiple sclerosis measured by automated versus semiautomated MR imaging segmentation

Jitendra Sharma, Michael P Sanfilipo, Ralph H B Benedict, Bianca Weinstock-Guttman, Frederick E Munschauer, Rohit Bakshi
2004 American Journal of Neuroradiology  
Linear measures of atrophy, whole-brain lesion volumes, and clinical data were used to explore validity. The 2D automated method yielded unreliable segmentation and was discarded.  ...  These automated and semiautomated measures of whole-brain atrophy provided similar and nearly interchangeable data regarding MS.  ...  Final whole-brain volume measurements for each tissue compartment were based on the segmented, masked images from native brain images (Fig 3) .  ... 
pmid:15205136 pmcid:PMC7975687 fatcat:n6uzmh2mbzdyld5ohhpsb3uvfi

Measurement of atrophy in multiple sclerosis: pathological basis, methodological aspects and clinical relevance

D. H. Miller
2002 Brain  
Abbreviations: BFV = brain fraction volume; BICCR = brain intracranial capacity ratio; BPF = brain parenchymal fraction; CIS = clinically isolated syndromes; COV = coef®cient of variance; EDSS = expanded  ...  aspartate; NAWM = normal appearing white matter; SPM = statistical parametric mapping; WBR = whole brain ratio ã  ...  A comparison of two methods for measuring atrophy in 39 primary progressive patients showed that the central slices approach (in this instance six 3-mm thick slices from the velum interpositum rostrally  ... 
doi:10.1093/brain/awf177 pmid:12135961 fatcat:zxyfwfxaizhira3tzf25x4ef6y

Regional White Matter Atrophy−Based Classification of Multiple Sclerosis in Cross-Sectional and Longitudinal Data

M.P. Sampat, A.M. Berger, B.C. Healy, P. Hildenbrand, J. Vass, D.S. Meier, T. Chitnis, H.L. Weiner, R. Bakshi, C.R.G. Guttmann
2009 American Journal of Neuroradiology  
MATERIALS AND METHODS: We analyzed a cross-sectional dataset of 64 patients (30 RRMS, 14 SPMS, 20 PPMS) and a separate longitudinal dataset of 25 patients (114 MR imaging examinations).  ...  For all images, the MOV and corpus callosum were delineated manually and the corpus callosum was parcellated into 5 segments.  ...  In this work, we did not aim to use the MR imagingϪbased measurements to render a diagnosis of clinical subtype.  ... 
doi:10.3174/ajnr.a1659 pmid:19696139 pmcid:PMC2821733 fatcat:s5fd3mriffdylnyfpieoy7472y

Comparison of methods for measuring longitudinal brain change in cognitive impairment and dementia

V.A Cardenas, A.T Du, D Hardin, F Ezekiel, P Weber, W.J Jagust, H.C Chui, N Schuff, M.W Weiner
2003 Neurobiology of Aging  
Progressive ERC atrophy was observed with a greater degree of cognitive impairment, while hippocampal and cortical atrophy were only observed in demented subjects.  ...  Longitudinal change in total brain size was measured by several methods, including computerized segmentation, non-linear warping, and change in the fluid/tissue boundaries between cerebrospinal fluid (  ...  Acknowledgments The authors wish to thank Diana Truran for overseeing segmentation of the images, Kevin Mark for assistance using SNT, Linda Rogers for statistical advice, and Nick Fox for helpful discussion  ... 
doi:10.1016/s0197-4580(02)00130-6 pmid:12714110 fatcat:acrmxsf5nvgg7lhy5nyecdrowa

Automatic Morphological Analysis of Medial Temporal Lobe

Andrea Chincarini, Mirko Corosu, Gianluca Gemme, Piero Calvini, Roberta Monge, Maria Antonietta Penco, Luca Rei, Sandro Squarcia, Patrizia Boccacci, Guido Rodriguez
2010 The Open Nuclear Medicine Journal  
Nowadays the efforts are directed toward finding an automated, unsupervised method of evaluating atrophy in some specific brain region, such as the medial temporal lobe (MTL).  ...  Among others, various morphological brain measures performed by means of magnetic resonance imaging (MRI), ranging from the total brain volume to some restricted regions such as the hippocampal volume,  ...  Both of these needs might be better addressed by efficient methods for the quantitative measurement of atrophy in the living brain.  ... 
doi:10.2174/1876388x01002010031 fatcat:qix37g6d4ngoper5be7kzlwuky

Use Case I: Imaging Biomarkers in Neurological Disease. Focus on Multiple Sclerosis [chapter]

Diana M. Sima, Dirk Loeckx, Dirk Smeets, Saurabh Jain, Paul M. Parizel, Wim Van Hecke
2016 Imaging Biomarkers  
Placebo-controlled trials in secondary progressive MS patients would require 32 subjects per arm to detect a 50 % treatment effect at 80 % power over 2 years, if MRI measures of brain atrophy (using the  ...  Measuring GM atrophy, instead of whole-brain atrophy, is potentially more useful since pseudo-atrophy appears to affect white matter more than grey matter [ 48 ] and may persist for more than 2 years  ... 
doi:10.1007/978-3-319-43504-6_15 fatcat:jjue6uryjba3vpnm3eblmlauge

Characterizing the Regional Structural Difference of the Brain between Tau Transgenic (rTg4510) and Wild-Type Mice Using MRI [chapter]

Zhiyong Xie, Dewen Yang, Diane Stephenson, Daniel Morton, Carol Hicks, Tracy Brown, Thomas Bocan
2010 Lecture Notes in Computer Science  
Tensor-based morphometry and atlas-based segmentation were applied to MRI images. Severe atrophy of hippocampus and neocortex as well as ventricular dilatation were observed in the transgenic mice.  ...  We investigated the volumetric differences of brain structures between transgenic and wild-type mice using MR images of fourteen 5.5 month old female mice.  ...  More specifically, a 3D geodesic active contour method [10] implemented in ITK-Snap was used for the semi-automatic brain segmentation.  ... 
doi:10.1007/978-3-642-15705-9_38 fatcat:tyldempykzgktnu7fkt5mmcure

The role of MR volumetry in brain atrophy assessment in multiple sclerosis: A review of the literature

Ewelina Marciniewicz, Joanna Bladowska, Przemysław Podgórski, Marek Sąsiadek
2019 Advances in Clinical and Experimental Medicine  
Based on a review of the current literature we summarize the mechanisms that contribute to brain atrophy.  ...  Evidence shows that measures of brain volume (BV) have the potential to be an important determinant of disease progression to a greater extent than conventional lesion assessment.  ...  Measurements of WM and GM atrophy remain among the current methods that can be used to quantify the grade of disease progression. 46 There have been a number of studies that investigated which brain  ... 
doi:10.17219/acem/94137 fatcat:xr4njw46k5cathlmh4vanznsuu

Patterns of brain atrophy in Parkinson's disease, progressive supranuclear palsy and multiple system atrophy

Demetrio Messina, Antonio Cerasa, Francesca Condino, Gennarina Arabia, Fabiana Novellino, Giuseppe Nicoletti, Maria Salsone, Maurizio Morelli, Pier Luigi Lanza, Aldo Quattrone
2011 Parkinsonism & Related Disorders  
Conclusions: Volumetric data obtained with automated segmentation of cerebral regions show a significant atrophy of different brain structures in parkinsonisms rather than in PD.  ...  Atrophy (MSA-P); the aim of this study was to identify the volumetric differences of subcortical structures in patients with PD, PSP and MSA-P using a novel and validated fully-automated whole brain segmentation  ...  This software is a highly reliable method for automated MRI-based measurements of human brain volumes that provides novel insights into abnormal neuroanatomy and may be a useful tool for the investigation  ... 
doi:10.1016/j.parkreldis.2010.12.010 pmid:21236720 fatcat:aravyequgjduplytgpdvmv3fki

Reliable measurements of brain atrophy in individual patients with multiple sclerosis

Dirk Smeets, Annemie Ribbens, Diana M. Sima, Melissa Cambron, Dana Horakova, Saurabh Jain, Anke Maertens, Eline Van Vlierberghe, Vasilis Terzopoulos, Anne-Marie Van Binst, Manuela Vaneckova, Jan Krasensky (+7 others)
2016 Brain and Behavior  
Method: In this paper, we present an automated longitudinal method based on Jacobian integration for measuring whole-brain and gray matter atrophy based on anatomical magnetic resonance images (MRI), named  ...  and disease progression, provided that it has a sufficiently low measurement error to draw meaningful conclusions for an individual patient.  ...  Atrophy measurements are performed for MR images from MS patients acquired with time gap of at least 6 months.  ... 
doi:10.1002/brb3.518 pmid:27688944 pmcid:PMC5036437 fatcat:mpveadkg2bbqza7tlzrsa2iouq

Unsupervised segmentation of MR images for brain dock examinations

K Sato, S Kadowaki, H Madokoro, M Ito, A Inugami
2010 IEEE Nuclear Science Symposuim & Medical Imaging Conference  
As described herein, we propose an unsupervised segmentation method for magnetic resonance (MR) brain imaging by hybridizing the self-mapping characteristics of 1-D Self-Organizing Maps (SOMs) and by using  ...  Additionally, we propose a Computer-Aided Diagnosis (CAD) system for use with brain dock examinations based on case analysis of diagnostic reading.  ...  ACKNOWLEDGEMENTS This study was conducted as a part of the Collaboration of Regional Entities for the Advancement of Technological Excellence from Japan Science and Technology Agency (JST) and the Ministry  ... 
doi:10.1109/nssmic.2010.5874210 fatcat:wpri3d334few3jiqbt3nstfi2q

Gray Matter Changes in Demyelinating Disease: Correlations with Clinical Scores

Mihaela Onu, Adina Aroceanu, Victor Ferastraoaru, Ovidiu Bajenaru
2015 MAEDICA – a Journal of Clinical Medicine  
A voxel-based morphometry (VBM), subcortical structures segmentation (FIRST) and volumetric (SIENAx) FSL tools were used in the study. Group comparison showed atrophy for several gray matter regions.  ...  For MR acquisitions, a GE- Genesis- Signa, 1.5T MR system, was used.  ...  In our study, we used FSL-VBM and, additionally, a separate analysis for segmenting and volume measuring cerebral structures by means of FSL's software tools -FSLFIRST and SIENAx.  ... 
pmid:28465732 pmcid:PMC5394444 fatcat:tu6vjz5vpbhjbem2tkrw3bm4yq

A comparison of automated atrophy measures across the frontotemporal dementia spectrum: Implications for trials

Elizabeth Gordon, Martina Bocchetta, Jennifer Nicholas, David M Cash, Jonathan D Rohrer
2021 NeuroImage: Clinical  
for comparison.  ...  Sample size estimates to detect a 30% reduction in atrophy (80% power; 0.05 significance) were computed to explore the relative feasibility of these brain measures as surrogate markers of disease progression  ...  Sample sizes were calculated to detect a 30% reduction in disease progression (as measured using annualised atrophy rate), corrected for the corresponding control rate of volume change for each whole-brain  ... 
doi:10.1016/j.nicl.2021.102842 pmid:34626889 pmcid:PMC8503665 fatcat:rvnfx73qf5cqfb3mx5ywpp3spy
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