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Quantitative comparison of 21 protocols for labeling hippocampal subfields and parahippocampal subregions in in vivo MRI: Towards a harmonized segmentation protocol

Paul A. Yushkevich, Robert S.C. Amaral, Jean C. Augustinack, Andrew R. Bender, Jeffrey D. Bernstein, Marina Boccardi, Martina Bocchetta, Alison C. Burggren, Valerie A. Carr, M. Mallar Chakravarty, Gaël Chételat, Ana M. Daugherty (+35 others)
2015 NeuroImage  
Conclusions: The combined examination of the 21 protocols in the same dataset suggests possible strategies towards developing a harmonized subfield segmentation protocol and facilitates comparison between  ...  This paper characterizes, both qualitatively and quantitatively, the variability in the existing manual segmentation protocols for labeling hippocampal and parahippocampal substructures in MRI, with the  ...  Conclusions This study has for the first time compared a large number of protocols for the segmentation of hippocampal subfields and parahippocampal subregions in a common MRI dataset.  ... 
doi:10.1016/j.neuroimage.2015.01.004 pmid:25596463 pmcid:PMC4387011 fatcat:4uafowbhanhwrepmnylzodchjy

A harmonized segmentation protocol for hippocampal and parahippocampal subregions: Why do we need one and what are the key goals?

Laura E.M. Wisse, Ana M. Daugherty, Rosanna K. Olsen, David Berron, Valerie A. Carr, Craig E.L. Stark, Robert S.C. Amaral, Katrin Amunts, Jean C. Augustinack, Andrew R. Bender, Jeffrey D. Bernstein, Marina Boccardi (+32 others)
2016 Hippocampus  
To overcome this barrier, the Hippocampal Subfields Group was formed as an international collaboration with the aim of developing a harmonized protocol for manual segmentation of hippocampal and parahippocampal  ...  The advent of high-resolution magnetic resonance imaging (MRI) has enabled in vivo research in a variety of populations and diseases on the structure and function of hippocampal subfields and subdivisions  ...  See Supplementary Material for a list of collaborators in the Hippocampal Subfields Groups.  ... 
doi:10.1002/hipo.22671 pmid:27862600 pmcid:PMC5167633 fatcat:hjlhat7y5zh6bomglqrdb7f3cy

Hippocampal subfields at ultra high field MRI: An overview of segmentation and measurement methods

Alessia Giuliano, Graziella Donatelli, Mirco Cosottini, Michela Tosetti, Alessandra Retico, Maria Evelina Fantacci
2017 Hippocampus  
Studying the morphometry of the hippocampus is crucial in neuroimaging research because changes in volume and thickness of hippocampal subregions may be relevant in the early assessment of pathological  ...  The present review provides an overview of the manual, semi-automated and fully automated methods that allow the assessment of hippocampal subfield morphometry at UHF MRI, focusing on the different hippocampal  ...  The quantitative comparison was based on SRLM thickness measurements in corresponding locations of in vivo and ex vivo scans.  ... 
doi:10.1002/hipo.22717 pmid:28188659 pmcid:PMC5573987 fatcat:njiutzqnrfe7ldchxeehe2fs5y

Heritability and reliability of automatically segmented human hippocampal formation subregions

Christopher D. Whelan, Derrek P. Hibar, Laura S. van Velzen, Anthony S. Zannas, Tania Carrillo-Roa, Katie McMahon, Gautam Prasad, Sinéad Kelly, Joshua Faskowitz, Greig deZubiracay, Juan E. Iglesias, Theo G.M. van Erp (+7 others)
2016 NeuroImage  
Our findings indicate that eleven of the twelve human hippocampal subregions segmented using FreeSurfer version 6.0 may serve as reliable and informative quantitative phenotypes for future multi-site imaging  ...  The human hippocampal formation can be divided into a set of cytoarchitecturally and functionally distinct subregions, involved in different aspects of memory formation.  ...  Data collection and sharing for this project was funded in part by the Alzheimer's Disease Neuroimaging Initiative (ADNI) (National Institutes of Health Grant U01 AG024904) and DOD ADNI (Department of  ... 
doi:10.1016/j.neuroimage.2015.12.039 pmid:26747746 pmcid:PMC4883013 fatcat:wnldqatrujcxxnmyswtxowfgpi

Structural imaging of hippocampal subfields in healthy aging and Alzheimer's disease

Robin de Flores, Renaud La Joie, Gaël Chételat
2015 Neuroscience  
However, harmonization of segmentation protocols and studies on larger samples are needed to enable accurate comparisons between studies and to confirm the clinical utility of these techniques.  ...  could be a sensitive biomarker for early AD detection -The effect of age and specific memory-volume correlations are less clear -Variations in methods and segmentation protocols cause important discrepancies  ...  Acknowledgements The authors are grateful for the financial support they have received from Association We thank Jacob W Vogel for his comments and English editing as well as Paul Yushkevich for sharing  ... 
doi:10.1016/j.neuroscience.2015.08.033 pmid:26306871 fatcat:mo2oypyj4vhyhgow7nznti3wx4

Quantifying Numerical and Spatial Reliability of Amygdala and Hippocampal Subdivisions in FreeSurfer [article]

Nicholas James Buser, Christopher R Madan, Jamie Hanson
2020 bioRxiv   pre-print
Here, we assessed the spatial and numerical reliability for newly-deployed automated segmentation of hippocampal subfields and amygdala nuclei in FreeSurfer.  ...  Examined collectively, our work suggests strong numerical and spatial reliability for the majority of hippocampal and amygdala subdivisions; however, caution should be exercised for a few regions with  ...  A reliable protocol for the manual segmentation of the human amygdala and its subregions using ultra-high resolution MRI.  ... 
doi:10.1101/2020.06.12.149203 fatcat:b2mcqymry5drfngdlycbwikone

A game for crowdsourcing the segmentation of BigBrain data

Arno Klein
2016 Research Ideas and Outcomes  
Labeling of the BigBrain will establish an ex vivo atlas, a common space for neuroimaging data whose labels will provide a consistent, convenient, and meaningful way to communicate, classify, and analyze  ...  To support this aim, we must (1) prepare expert (gold standard) labels to a subset of the hippocampal sections to evaluate crowdsourced results, and (2) aggregate the crowdsourced results to label the  ...  labels, toward a rich ex vivo atlas that would greatly facilitate comparisons between different in vivo and ex vivo studies of the hippocampus.  ... 
doi:10.3897/rio.2.e8816 fatcat:jmilpqohufdtndugsmdqyp65py

Freesurfer cortical normative data for adults using Desikan-Killiany-Tourville and ex vivo protocols

Olivier Potvin, Louis Dieumegarde, Simon Duchesne
2017 NeuroImage  
We aimed to produced similar normative values for Desikan-Killianny-Tourville (DKT) and ex vivo-based labeling protocols, as well as examine the differences between these three atlases.  ...  Comparison between DK, DKT, ex vivo atlases normative cortical measures showed that the three protocols generally produced similar normative values.  ...  Canada -Pfizer-FRQS Innovation Fund (#25262), and the Canadian Institute for Health Research (#117121).  ... 
doi:10.1016/j.neuroimage.2017.04.035 pmid:28479474 fatcat:dzkn37zpajdt5ljh3fmxdiu46y

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  
Our main focus is the relevance of the morphological analysis of MTL, and in particular of the hippocampal formation, in making the diagnosis of AD and in distinguishing it from other dementias.  ...  In this work we provide an extensive review of the state of the art on the automatic and semi-automatic image processing techniques for the early assessment of patients at risk of developing AD.  ...  In this work, state-of-the-art 3D hippocampal analysis techniques allowed to demonstrate selective subregional hippocampal atrophy in vivo [23, 37] . Moreover, Apostolova et al.  ... 
doi:10.2174/1876388x01002010031 fatcat:qix37g6d4ngoper5be7kzlwuky

Key clinical benefits of neuroimaging at 7 T

Siegfried Trattnig, Elisabeth Springer, Wolfgang Bogner, Gilbert Hangel, Bernhard Strasser, Barbara Dymerska, Pedro Lima Cardoso, Simon Daniel Robinson
2018 NeuroImage  
In imaging of the hippocampus, even subfields of the internal hippocampal anatomy and pathology may be visualized with excellent spatial resolution.  ...  Vascular imaging is a highly promising field for 7 T which is dealt with in a separate dedicated article in this special issue.  ...  Acknowledgements This work was supported by the FFG Bridge Early Stage Grant #846505, the Anniversary Fund of the Oesterreichische Nationalbank, project number 15680 and the Austrian Science Fund (FWF)  ... 
doi:10.1016/j.neuroimage.2016.11.031 pmid:27851995 pmcid:PMC5832016 fatcat:snjc6lnyxrgsbkrve3fui7cgzm

Preoperative diagnosis of mesial temporal lobe epilepsy subtypes with in vivo MRI

Trevor A Steve
In vivo MRI studies therefore use hippocampal subfield volumes (or areas) as a surrogate marker for subregional densities.  ...  In this thesis, we sought to determine if histological measurements from multiple cadaveric hippocampi could be used to develop a histologically validated segmentation protocol for the hippocampal body  ...  Conclusions In this initial proof of concept study, we used ex vivo MRI and histology of cadaveric hippocampi to develop a novel segmentation protocol for the hippocampal body.  ... 
doi:10.7939/r3ks6jm4z fatcat:3wyvf4sqdjc6vfrn4uptzmaq7a

Sex is a defining feature of neuroimaging phenotypes in major brain disorders

Lauren E Salminen, Meral A Tubi, Joanna Bright, Sophia I Thomopoulos, Alyssa Wieand, Paul M Thompson
2021 Human Brain Mapping  
We discuss commonalities and sources of variance in study designs, analysis procedures, disease subtype effects, and the impact of these factors on MRI interpretation.  ...  Sex is a biological variable that contributes to individual variability in brain structure and behavior.  ...  , and childhood trauma on hippocampal subfield volumes extracted with the FreeSurfer-v.6.0 hippocampal subfield protocol (Iglesias et al., 2015) , such that female SCZ patients (n = 21) had a larger hippocampal  ... 
doi:10.1002/hbm.25438 pmid:33949018 pmcid:PMC8805690 fatcat:4y3ufbxppjg3bobnvysm7cwd7q

Functional architecture of medial temporal lobe pathways and mnemonic discrimination in young and elderly adults [article]

David Berron, Universitäts- Und Landesbibliothek Sachsen-Anhalt, Martin-Luther Universität, Emrah Düzel
In the first experiment, high-resolution MRI at 7 Tesla (T) was used to develop a segmentation protocol that enables researchers to manually delineate hippocampal subfields as well as extrahippocampal  ...  While the perirhinal cortex (PrC) plays a key role in memory for objects, the parahippocampal cortex (PhC) is preferentially involved in memory for context.  ...  groups in various disciplines aiming to harmonize all the different protocols for hippocampal and parahippocampal subregions (Wisse et al., 2016a) .  ... 
doi:10.25673/5162 fatcat:vg3yhk7pbffo3a2yryfmynctca

ACNP 57th Annual Meeting: Poster Session III

2018 Neuropsychopharmacology  
In a previous study, we developed the SASP (Senescence-Associated Secretory Phenotype) index, which is a composite measure of biomarkers related to senescence processes and can be viewed as an indicator  ...  Methods: We included subjects from an ongoing cohort of older adults with major depression (n = 66) that underwent 3 T brain MRI scan and comprehensive neurocognitive assessment.  ...  Image preprocessing and longitudinal segmentation of hippocampal subfields were completed using FreeSurfer, segmenting 12 bilateral regions.  ... 
doi:10.1038/s41386-018-0268-5 fatcat:wiooxnisvfhovadauljiso4ie4

4th European conference on schizophrenia research: together for better treatment and care

2013 European Archives of Psychiatry and Clinical Neuroscience  
S-06-003 The development of multiple antipsychotic combination treatment in comparison between European countries: findings from the AMSP project A. Konstantinidis (Div.  ...  Kelleher (Royal College of Surgeons in Ireland, Objective: Antipsychotic drugs have been used for more than a half century.  ...  alterations in dopaminergic subregions of substantia nigra and ventral tegmental area, but a higher dopaminergic fiber density in dorsal hippocampus, ventral hippocampal CA1 and gyrus dentatus.  ... 
doi:10.1007/s00406-013-0433-0 pmid:23959132 fatcat:zgntoorsxvbbppkld4nuedpfnm
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