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. 2023 Oct 26;26(12):2237–2249. doi: 10.1038/s41593-023-01469-3

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© The Author(s) 2023, corrected publication 2024

Open Access 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 license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license 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 license, visit http://creativecommons.org/licenses/by/4.0/.

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Extended Data Fig. 2 — a, Sample and section overview. 6 coronal sections covering the anterior-posterior amygdala; with alignment to reference sections (adjusted from Allen Reference Atlas – Mouse Brain (atlas.brain-map.org), and amygdala regions highlighted for anatomical reference. b, Cell types in dendrogram order, with color map for branches (right), and cluster colors (left). c, Spatial mapping of 130 neuronal clusters to Visium ST sections, visualized by weighted correlation of scRNA-seq-derived cell type profiles (b) to Visium ST capture spots. d, Correlation heatmap between spatial transcriptomics and 13 cell types (examples), visualized on the Visium ST sections. Gray, low; red, high correlation. e, Correlation heatmap between spatial transcriptomics expression annotated to amygdala regions (rows, ordered by similarity) and all 130 cell types (dendrogram order, as b). Blue, low; red, high correlation.

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