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. 2021 Sep 21;8:673042. doi: 10.3389/fmolb.2021.673042

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Copyright © 2021 Boisson, Noël, Saiselet, Rodrigues-Vitória, Thomas, Fontsa, Sofronii, Naveaux, Duvillier, Craciun, Larsimont, Awada, Detours, Willard-Gallo and Garaud.

This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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Spatial gene expression in breast cancer. (A) UMAP representation of global gene expression in individual spots from a fresh-frozen section of an invasive lobular carcinoma created five distinct clusters with unbiased Seurat clustering. (B) The features were placed back onto the H&E staining. (C) Four TLS were histologically annotated on brightfield images of H&E-stained tissue sections (white line). (D) Visualization of eight selected genes as spatial heatmaps. (E) A heatmap of the top ten differentially expressed genes in the annotated TLS compared with the remaining tumor tissue. (F) Spatial heatmaps of T_FH and Th1 signatures.