title: Multi-contrast submillimetric 3 Tesla hippocampal subfield segmentation protocol and dataset.
abstract: The hippocampus is composed of distinct anatomical subregions that participate in multiple cognitive processes and are differentially affected in prevalent neurological and psychiatric conditions. Advances in high-field MRI allow for the non-invasive identification of hippocampal substructure. These approaches, however, demand time-consuming manual segmentation that relies heavily on anatomical expertise. Here, we share manual labels and associated high-resolution MRI data (MNI-HISUB25; submillimetric T1- and T2-weighted images, detailed sequence information, and stereotaxic probabilistic anatomical maps) based on 25 healthy subjects. Data were acquired on a widely available 3 Tesla MRI system using a 32 phased-array head coil. The protocol divided the hippocampal formation into three subregions: subicular complex, merged Cornu Ammonis 1, 2 and 3 (CA1-3) subfields, and CA4-dentate gyrus (CA4-DG). Segmentation was guided by consistent intensity and morphology characteristics of the densely myelinated molecular layer together with few geometry-based boundaries flexible to overall mesiotemporal anatomy, and achieved excellent intra-/inter-rater reliability (Dice index ≥90/87%). The dataset can inform neuroimaging assessments of the mesiotemporal lobe and help to develop segmentation algorithms relevant for basic and clinical neurosciences.
authors.affiliation: Neuroimaging of Epilepsy Laboratory, Department of Neurology and Neurosurgery and McConnell Brain Imaging Centre, McGill University , Montreal, Quebec, Canada H3A2B4.
authors.forename: Jessie
authors.initials: J
authors.lastname: Kulaga-Yoskovitz
authors.affiliation: Neuroimaging of Epilepsy Laboratory, Department of Neurology and Neurosurgery and McConnell Brain Imaging Centre, McGill University , Montreal, Quebec, Canada H3A2B4 ; Max-Planck Institute for Human Cognitive and Brain Sciences, Department of Social Neuroscience , Leipzig 04303, Germany.
authors.forename: Boris C
authors.initials: BC
authors.lastname: Bernhardt
authors.affiliation: Neuroimaging of Epilepsy Laboratory, Department of Neurology and Neurosurgery and McConnell Brain Imaging Centre, McGill University , Montreal, Quebec, Canada H3A2B4.
authors.forename: Seok-Jun
authors.initials: SJ
authors.lastname: Hong
authors.affiliation: Medical Imaging Technologies, Healthcare Technology Center, Siemens Medical Solution USA, Inc. , Princeton, New Jersey 08540, USA.
authors.forename: Tommaso
authors.initials: T
authors.lastname: Mansi
authors.affiliation: Neuroimaging of Epilepsy Laboratory, Department of Neurology and Neurosurgery and McConnell Brain Imaging Centre, McGill University , Montreal, Quebec, Canada H3A2B4.
authors.forename: Kevin E
authors.identifier: 0000-0003-3470-8456
authors.initials: KE
authors.lastname: Liang
authors.affiliation: Department of Radiology, Athinoula A. Martinos Center for Biomedical Imaging, Massachusetts General Hospital , Charlestown, Massachusetts 02129, USA.
authors.forename: Andre J W
authors.initials: AJ
authors.lastname: van der Kouwe
authors.affiliation: Department of Psychology, York University , York YO105DD, UK.
authors.forename: Jonathan
authors.initials: J
authors.lastname: Smallwood
authors.affiliation: Neuroimaging of Epilepsy Laboratory, Department of Neurology and Neurosurgery and McConnell Brain Imaging Centre, McGill University , Montreal, Quebec, Canada H3A2B4.
authors.forename: Andrea
authors.initials: A
authors.lastname: Bernasconi
authors.affiliation: Neuroimaging of Epilepsy Laboratory, Department of Neurology and Neurosurgery and McConnell Brain Imaging Centre, McGill University , Montreal, Quebec, Canada H3A2B4.
authors.forename: Neda
authors.initials: N
authors.lastname: Bernasconi
mesh_terms: D000465:Algorithms; D001931:Brain Mapping; D018891:Dentate Gyrus / Q000033:anatomy & histology; D006624:Hippocampus / Q000033:anatomy & histology; D006801:Humans; D007090:Image Interpretation, Computer-Assisted; D008279:Magnetic Resonance Imaging
keywords: Brain; Brain imaging; Magnetic resonance imaging; Neurology; Neuroscience