HippoMaps : multiscale cartography of human hippocampal organization

DeKraker, Jordan; Cabalo, Donna Gift; Royer, Jessica; Ngo, Alexander; Khan, Ali R; Karat, Bradley G; Benkarim, Oualid; Rodriguez-Cruces, Raul; Frauscher, Birgit; Pana, Raluca; Hansen, Justine Y; Misic, Bratislav; Valk, Sofie L; Lau, Jonathan C; Kirschner, Matthias; Bernasconi, Andrea; Bernasconi, Neda; Muenzing, Sascha E A; Axer, Markus; Amunts, Katrin; Evans, Alan C; Bernhardt, Boris C

doi:10.1038/s41592-025-02783-3

Scientific article

English

HippoMaps : multiscale cartography of human hippocampal organization

Published inNature methods, vol. 22, no. 10, p. 2211-2222

Publication date2025-10

First online date2025-10-01

Abstract

The hippocampus has a specialized microarchitecture, is situated at the nexus of multiple macroscale functional networks, contributes to numerous cognitive as well as affective processes and is highly susceptible to brain pathology across common disorders. These features make the hippocampus a model to understand how brain structure covaries with function, in both health and disease. Here we introduce HippoMaps, an open access toolbox and online data warehouse for the mapping and contextualization of subregional hippocampal data in the human brain ( http://hippomaps.readthedocs.io ). HippoMaps capitalizes on a unified hippocampal unfolding approach as well as shape intrinsic registration capabilities to allow for cross-participant and cross-modal data aggregation. We initialize this repository with a combination of hippocampal data spanning three-dimensional ex vivo histology, ex vivo 9.4-Tesla magnetic resonance imaging (MRI), as well as in vivo structural MRI and resting-state functional MRI obtained at 3 Tesla and 7 Tesla, together with intracranial encephalography recordings in patients with epilepsy. All code, data and tools are openly available online, with the aim of fostering further community contributions.

Keywords

Humans
Hippocampus / diagnostic imaging
Hippocampus / anatomy & histology
Hippocampus / physiology
Magnetic Resonance Imaging / methods
Brain Mapping / methods
Imaging, Three-Dimensional
Software
Image Processing, Computer-Assisted / methods

Affiliation entities

Faculté de médecine / Section de médecine clinique / Département de psychiatrie

Research groups

Neurosciences transdiagnostiques et multimodales (1075)

Funding

Canadian Network for Research and Innovation in Machining Technology, Natural Sciences and Engineering Research Council of Canada (NSERC Canadian Network for Research and Innovation in Machining Technology) [2023-05562]
Canadian Network for Research and Innovation in Machining Technology, Natural Sciences and Engineering Research Council of Canada (NSERC Canadian Network for Research and Innovation in Machining Technology) [1304413]
Gouvernement du Canada | Instituts de Recherche en Santé du Canada | CIHR Skin Research Training Centre (Skin Research Training Centre) [175056]
Gouvernement du Canada | Instituts de Recherche en Santé du Canada | CIHR Skin Research Training Centre (Skin Research Training Centre) [FDN-154298, PJT-174995, PJT-191853]
Swiss National Science Foundation - Linking inflammation and oxidative stress to motivational deficits in schizophrenia [219240]

Citation (ISO format)

DEKRAKER, Jordan et al. HippoMaps : multiscale cartography of human hippocampal organization. In: Nature methods, 2025, vol. 22, n° 10, p. 2211–2222. doi: 10.1038/s41592-025-02783-3