Comparative performance evaluation of automated segmentation methods of hippocampus from magnetic resonance images of temporal lobe epilepsy patients

Hosseini, Mohammad-Parsa; Nazem-Zadeh, Mohammad-Reza; Pompili, Dario; Jafari-Khouzani, Kourosh; Elisevich, Kost; Soltanian-Zadeh, Hamid

doi:10.1118/1.4938411

Cited by 35 publications

(21 citation statements)

References 62 publications

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“…Previous studies reported that earlier versions of FreeSurfer agree more closely with manual methods than other common tools, FSL/FIRST [Morey et al, 2009; Schoemaker et al, 2016] or IBASPM [Tae et al, 2008]. Some hippocampus-specific classification systems [Tangaro et al, 2014; Platero and Tobar, 2016] and the Automatic Brain Segmentation System [Hosseini et al, 2016] have outperformed FreeSurfer in hippocampus-specific segmentations. FreeSurfer has also been shown to be more sensitive to the atrophy coincident with MDD than alternatives [Morey et al, 2009].…”

Section: Discussionmentioning

confidence: 99%

A comparison of manual tracing and FreeSurfer for estimating hippocampal volume over the adult lifespan

Schmidt

Storrs

Freeman

et al. 2018

Human Brain Mapping

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MRI has become an indispensable tool for brain volumetric studies, with the hippocampus an important region of interest. Automation of the MRI segmentation process has helped advance the field by facilitating the volumetric analysis of larger cohorts and more studies. FreeSurfer has emerged as the de facto standard tool for these analyses, but studies validating its output are all based on older versions. To characterize FreeSurfer's validity, we compare several versions of FreeSurfer software with traditional hand-tracing. Using MRI images of 262 males and 402 females aged 38 to 84, we directly compare estimates of hippocampal volume from multiple versions of FreeSurfer, its hippocampal subfield routines, and our manual tracing protocol. We then use those estimates to assess asymmetry and atrophy, comparing performance of different estimators with each other and with brain atrophy measures. FreeSurfer consistently reports larger volumes than manual tracing. This difference is smaller in larger hippocampi or older people, with these biases weaker in version 6.0.0 than prior versions. All methods tested agree qualitatively on rightward asymmetry and increasing atrophy in older people. FreeSurfer saves time and money, and approximates the same atrophy measures as manual tracing, but it introduces biases that could require statistical adjustments in some studies.

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Section: Discussionmentioning

confidence: 99%

A comparison of manual tracing and FreeSurfer for estimating hippocampal volume over the adult lifespan

Schmidt

Storrs

Freeman

et al. 2018

Human Brain Mapping

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“…Bilateral mesial temporal lobe atrophy raises concerns of markedly reduced chance of seizure freedom after surgery 76 and an increased risk of memory impairment. 14 Over the years, steady technical advances have propelled the design of automated algorithms yielding segmentation of the whole hippocampus (eg, Sone et al, 77 Hosseini et al, 78 Kim et al 79 ), and more recently hippocampal subfields, 80 thereby creating a solid basis for broad translation ( Figure 5). Several US Food and Drug Administration (FDA)-approved commercial software packages are currently available for routine use in clinical practice and provide an automated report that details the volume and percentile of each parcellated cortical region compared to a normative database.…”

Section: Volumetry and Shape Modeling Of Mesiotemporal Lobe Structuresmentioning

confidence: 99%

Recommendations for the use of structural magnetic resonance imaging in the care of patients with epilepsy: A consensus report from the International League Against Epilepsy Neuroimaging Task Force

et al. 2019

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Structural magnetic resonance imaging (MRI) is of fundamental importance to the diagnosis and treatment of epilepsy, particularly when surgery is being considered. Despite previous recommendations and guidelines, practices for the use of MRI are variable worldwide and may not harness the full potential of recent technological advances for the benefit of people with epilepsy. The International League Against Epilepsy Diagnostic Methods Commission has thus charged the 2013‐2017 Neuroimaging Task Force to develop a set of recommendations addressing the following questions: (1) Who should have an MRI? (2) What are the minimum requirements for an MRI epilepsy protocol? (3) How should magnetic resonance (MR) images be evaluated? (4) How to optimize lesion detection? These recommendations target clinicians in established epilepsy centers and neurologists in general/district hospitals. They endorse routine structural imaging in new onset generalized and focal epilepsy alike and describe the range of situations when detailed assessment is indicated. The Neuroimaging Task Force identified a set of sequences, with three‐dimensional acquisitions at its core, the harmonized neuroimaging of epilepsy structural sequences—HARNESS‐MRI protocol. As these sequences are available on most MR scanners, the HARNESS‐MRI protocol is generalizable, regardless of the clinical setting and country. The Neuroimaging Task Force also endorses the use of computer‐aided image postprocessing methods to provide an objective account of an individual's brain anatomy and pathology. By discussing the breadth and depth of scope of MRI, this report emphasizes the unique role of this noninvasive investigation in the care of people with epilepsy.

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“…Hosseini et al provided a comprehensive evaluation of the hippocampus segmentation algorithms [Hosseini et al, ]. They categorize various metrics into three groups.…”

Section: Introductionmentioning

confidence: 99%

“…The three groups of metrics base their evaluation on, respectively, voxel, distance, and volume. To better characterize the segmentation with and without the super resolution scheme, we also compute the evaluation metrics in [Hosseini et al, ], shown in Table .…”

Section: Introductionmentioning

confidence: 99%

The bumps under the hippocampus

Chang

Huang

Zhou

et al. 2017

Human Brain Mapping

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Shown in every neuroanatomy textbook, a key morphological feature is the bumpy ridges, which we refer to as hippocampal dentation, on the inferior aspect of the hippocampus. Like the folding of the cerebral cortex, hippocampal dentation allows for greater surface area in a confined space. However, examining numerous approaches to hippocampal segmentation and morphology analysis, virtually all published 3D renderings of the hippocampus show the inferior surface to be quite smooth or mildly irregular; we have rarely seen the characteristic bumpy structure on reconstructed 3D surfaces. The only exception is a 9.4T postmortem study (Yushkevich et al. [2009]: NeuroImage 44:385-398). An apparent question is, does this indicate that this specific morphological signature can only be captured using ultra high-resolution techniques? Or, is such information buried in the data we commonly acquire, awaiting a computation technique that can extract and render it clearly? In this study, we propose an automatic and robust super-resolution technique that captures the fine scale morphometric features of the hippocampus based on common 3T MR images. The method is validated on 9.4T ultra-high field images and then applied on 3T data sets. This method opens possibilities of future research on the hippocampus and other sub-cortical structural morphometry correlating the degree of dentation with a range of diseases including epilepsy, Alzheimer's disease, and schizophrenia. Hum Brain Mapp 39:472-490, 2018. © 2017 Wiley Periodicals, Inc.

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Comparative performance evaluation of automated segmentation methods of hippocampus from magnetic resonance images of temporal lobe epilepsy patients

Cited by 35 publications

References 62 publications

A comparison of manual tracing and FreeSurfer for estimating hippocampal volume over the adult lifespan

A comparison of manual tracing and FreeSurfer for estimating hippocampal volume over the adult lifespan

Recommendations for the use of structural magnetic resonance imaging in the care of patients with epilepsy: A consensus report from the International League Against Epilepsy Neuroimaging Task Force

The bumps under the hippocampus

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