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. 2021 Jul 21;9:128. doi: 10.1186/s40478-021-01225-3

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© The Author(s) 2021

This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.

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Fig. 1 — Method for obtaining thickness measures from high-resolution post-mortem MRI in medial temporal lobe subregions. For each anatomical location (indicated by a dot; first row), cortical thickness was measured by using semi-automated active contour segmentation in ITK-SNAP (with possible manual correction) to segment a portion of the surrounding gray matter extending ~ 5–10 mm from the dot in all directions (second and third row). Thickness at each location was measured as the diameter of the sphere overlapping the dot, fully contained in the gray matter segmentation, and having maximum possible radius (fourth row). Segmentations and fitted spheres were visually inspected for quality assurance. See supplementary Methods for details. Note that we only show three examples in this figure. For this study we performed thickness measurements for seven subregions and averaged thickness measurements over two locations for each subregion, see Additional file 1: Fig. 1. ERC = entorhinal cortex; SRLM = stratum radiatum lacunosum moleculare; PHC = parahippocampal cortex