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A computational atlas of the hippocampal formation using ex vivo , ultra-high resolution MRI: Application to adaptive segmentation of in vivo MRI
2015
NeuroImage
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Here we describe the construction of a statistical atlas of the hippocampal formation at the subregion level using ultra-high resolution, ex vivo MRI. ...
The manual labels from the in vivo and ex vivo data were combined into a single computational atlas of the hippocampal formation with a novel atlas building algorithm based on Bayesian inference. ...
The authors would also like to acknowledge Rohit Koppula and Lianne Cagnazzi for their help with the manual segmentation of the ex vivo MRI data; and Susanne Mueller and Paul Yushkevich for their help ...
doi:10.1016/j.neuroimage.2015.04.042
pmid:25936807
pmcid:PMC4461537
fatcat:oksmsx6wdrccbazgzvutbrjtqa
Hippocampal subfields at ultra high field MRI: An overview of segmentation and measurement methods
2017
Hippocampus
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In the recent years, the increasing availability of Magnetic Resonance Imaging (MRI) scanners that operate at ultra-high field (UHF), that is, with static magnetic field strength ! ...
Compared to conventional high-field scanners, these systems can provide new contrasts, increased signal-to-noise ratio and higher spatial resolution, thus they may improve the visualization of very small ...
Another important application of manual HF subfield segmentation methods is the construction of high-resolution anatomical atlases using ex vivo data. ...
doi:10.1002/hipo.22717
pmid:28188659
pmcid:PMC5573987
fatcat:njiutzqnrfe7ldchxeehe2fs5y
Post-mortem inference of the human hippocampal connectivity and microstructure using ultra-high field diffusion MRI at 11.7 T
2018
Brain Structure and Function
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These results demonstrate that ex vivo ultra-high field/ultra-high gradients diffusion-weighted MRI allows the mapping of the inner connectivity of the human hippocampus, its microstructure, and to accurately ...
A major target of this paper is the demonstration of diffusion MRI potential, using ultra-high field (11.7 T) and strong gradients (750 mT/m), to reveal the extra-and intrahippocampal connectivity in addition ...
distribution, 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 ...
doi:10.1007/s00429-018-1617-1
pmid:29387938
pmcid:PMC5968081
fatcat:4cttfy7ienhrxex4ra43xngsly
Analysis of Hippocampal Subfields in Sickle Cell Disease Using Ultrahigh Field MRI
[article]
2020
bioRxiv
pre-print
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Both T1 and T2 weighted images were used for automatic segmentation of the hippocampus subfields. ...
Other hippocampal subregions also showed a trend towards smaller volumes in the SCD group. These findings support previous reports of reduced volume in the temporal lobe in SCD patients. ...
A
345
computational atlas of the hippocampal formation using ex vivo, ultra-high resolution MRI:
346
application to adaptive segmentation of in vivo MRI. Neuroimage. 2015;115:117-37.
347
32. ...
doi:10.1101/2020.11.10.377564
fatcat:om4nh6c2mfclzav3bedm7oztey
Multimodal image registration and connectivity analysis for integration of connectomic data from microscopy to MRI
2019
Nature Communications
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, and their correlation with in-vivo biomarkers. ...
to the ischemic core. ...
Acknowledgements The authors thank Newton Cho, Jordan Squair, Vanessa Sochat, Masaki Ito, Stéphane Pagès, and Yu Wang for their help with pipeline optimization, testing, and validation experiments. ...
doi:10.1038/s41467-019-13374-0
pmid:31796741
pmcid:PMC6890789
fatcat:6amqk6fsojcgzjalhqvxp7wqym
MRI Techniques and New Animal Models for Imaging the Brain
[chapter]
2012
When Things Go Wrong - Diseases and Disorders of the Human Brain
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The same researchers also built a 3D probabilistic pig brain atlas of the deep brain structures using ex vivo adult Large White pig brains. ...
As mentioned above, a high-resolution atlas of the pig brain has been constructed (Saikali et al. 2010) . ...
of disease but also the prediction of a huge increase in the number of people becoming afflicted. ...
doi:10.5772/35834
fatcat:hqdqiirinvbaraxafxbazxg2gu
Exposure to ultrafine particles, intracellular production of reactive oxygen species in leukocytes and altered levels of endothelial progenitor cells
2016
Toxicology
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Thanks to the increasing resolution of MR images and computational atlases, automatic segmentation of hippocampal subregions is becoming feasible in MRI scans. ...
A B S T R A C T The hippocampal formation is a complex, heterogeneous structure that consists of a number of distinct, interacting subregions. ...
Support for this research was also provided in part by the National Cancer Institute (1K25-CA181632-01), the Genentech Foundation (G-40819) and the Nvidia corporation, which donated a Titan X GPU. ...
doi:10.1016/j.tox.2016.06.007
pmid:27311922
fatcat:kgjbdmo6ybbyzapmxrwl5bmtpa
SYSTEMATIC COMPARISON OF DIFFERENT TECHNIQUES TO MEASURE HIPPOCAMPAL SUBFIELD VOLUMES IN ADNI2
2016
Alzheimer's & Dementia
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Model-based subfield segmentation using ex-vivo atlas (FreeSurfer 6.0). 2. T2-based automated multi-atlas segmentation combined with similarity-weighted voting (ASHS). 3. ...
Methods: The high resolution T2 weighted hippocampal images (T2-HighRes) and the corresponding T1 images from 106 ADNI2 subjects (41 controls, 57 MCI, 8 AD) were processed as follows. A. T1-based: 1. ...
Acknowledgment The project was supported by a grant of the Alzheimer's Association (ADNI 2-12-233036) to MWW and SGM. None of the authors has a conflict of interest to declare. ...
doi:10.1016/j.jalz.2016.06.1399
fatcat:byhrkp5quzgpvc6gk3mxntnvee
Systematic comparison of different techniques to measure hippocampal subfield volumes in ADNI2
2018
NeuroImage: Clinical
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Model-based subfield segmentation using ex-vivo atlas (FreeSurfer 6.0). 2. T2-based automated multi-atlas segmentation combined with similarity-weighted voting (ASHS). 3. ...
Methods: The high resolution T2 weighted hippocampal images (T2-HighRes) and the corresponding T1 images from 106 ADNI2 subjects (41 controls, 57 MCI, 8 AD) were processed as follows. A. T1-based: 1. ...
Acknowledgment The project was supported by a grant of the Alzheimer's Association (ADNI 2-12-233036) to MWW and SGM. None of the authors has a conflict of interest to declare. ...
doi:10.1016/j.nicl.2017.12.036
pmid:29527502
pmcid:PMC5842756
fatcat:sgtkjzsplrfdpebyvy744zgsce
Using diffusion MRI data acquired with ultra-high gradients to improve tractography in routine-quality data
[article]
2021
bioRxiv
pre-print
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AbstractThe development of scanners with ultra-high gradients, spearheaded by the Human Connectome Project, has led to dramatic improvements in the spatial, angular, and diffusion resolution that is feasible ...
for in vivo diffusion MRI acquisitions. ...
“A probabilistic atlas of the human thalamic nuclei
1142 combining ex vivo MRI and histology.” ...
doi:10.1101/2021.06.28.450265
fatcat:laud55hjqzg6rhpd3cdqxsgyoa
The NonHuman Primate Neuroimaging & Neuroanatomy Project
2021
NeuroImage
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We are acquiring high-resolution structural, functional, and diffusion MRI data together with behavioral measures from over 100 individual macaques and marmosets in order to generate non-invasive measures ...
macaque and marmoset monkeys using protocols and methods adapted from the HCP; (ii) acquire quantitative invasive tract-tracing data for cortical and subcortical projections to cortical areas; and (iii ...
Acknowledgements
This study is supported by a grant Brain/MINDS -beyond from
References under revision of this special issue of NeuroImage Autio, J.A., Zhu, Q., Li, X., Glasser, M.F., Schwiedrzik, ...
doi:10.1016/j.neuroimage.2021.117726
pmid:33484849
pmcid:PMC8079967
fatcat:tfv3sm6xpjfnfj2uarpqwnyc5u
The NonHuman Primate Neuroimaging Neuroanatomy Project
[article]
2021
arXiv
pre-print
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We are acquiring high-resolution structural, functional, and diffusion MRI data together with behavioral measures from over 100 individual macaques and marmosets in order to generate non-invasive measures ...
macaque and marmoset monkeys using protocols and methods adapted from the HCP; (ii) acquire quantitative invasive tract-tracing data for cortical and subcortical projections to cortical areas; and (iii ...
These atlas sections will be aligned to high-resolution structural MRI (spatial resolution of 0.5mm) obtained in vivo from the same animal that will in turn be aligned to the Yerkes19 atlas. ...
arXiv:2010.00308v3
fatcat:xqccnaz2hzcs7pqedcutkvktea
Minimal Specifications for Non-Human Primate MRI: Challenges in Standardizing and Harmonizing Data Collection
2021
NeuroImage
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Recent methodological advances in MRI have enabled substantial growth in neuroimaging studies of non-human primates (NHPs), while open data-sharing through the PRIME-DE initiative has increased the availability ...
of NHP MRI data and the need for robust multi-subject multi-center analyses. ...
Acknowledgements We express gratitude to the Primate Neuroimaging Data-Exchange (PRIME-DE) initiative and to all institutions that contributed to the PRIME-DE dataset. ...
doi:10.1016/j.neuroimage.2021.118082
pmid:33882349
pmcid:PMC8594288
fatcat:rcy2qe2o75gybigrak6hyigupa
Using diffusion MRI data acquired with ultra-high gradient strength to improve tractography in routine-quality data
2021
NeuroImage
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The development of scanners with ultra-high gradient strength, spearheaded by the Human Connectome Project, has led to dramatic improvements in the spatial, angular, and diffusion resolution that is feasible ...
for in vivo diffusion MRI acquisitions. ...
Introduction Diffusion MRI (dMRI) tractography allows us to investigate the connectional anatomy of the human brain in vivo and non-invasively. ...
doi:10.1016/j.neuroimage.2021.118706
pmid:34780916
pmcid:PMC8835483
fatcat:sqjn4ezcgja23awguib3se3qjy
No evidence for morphometric associations of the amygdala and hippocampus with the five-factor model personality traits in relatively healthy young adults
2018
PLoS ONE
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Additionally, recent advances in MRI analysis methods provide unprecedented accuracy in measuring these structures and enable segmentation into their substructures. ...
is associated with the five-factor model (FFM) personality traits in a sample of relatively healthy young adults. ...
A computational atlas of the hippocampal formation using ex vivo, ultra-high resolution MRI: Application to adaptive segmentation of in vivo MRI. ...
doi:10.1371/journal.pone.0204011
pmid:30235257
pmcid:PMC6147458
fatcat:3wa5g6kwpnadlpgzfzbh3ood2i
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