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. 2024 Feb 19;15:1493. doi: 10.1038/s41467-024-45665-6

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© The Author(s) 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 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/.

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Fig. 5 — a Schematic of MIBI workflow and customized antibody panel. Created with BioRender.com. MIBI images representative of 32 FOVs for (b) nuclear DNA, indicated major cell lineage markers, and 5 color overlay, and (c) 39-plex overlay, selected channels, and related spatial scatter plots for coarse annotation of the indicated cell subsets. d Cell frequency as a percent of total cells detected by MIBI for the indicated cell subset. e Schematic of CODEX workflow and antibody panel. Created with BioRender.com. f UMAP visualization of 68,804 captured cells (50,000 cells displayed) highlighting annotated clusters. g Marker similarity matrix among 23 selected markers (Pearson correlation). h CODEX images representative of 15 cores, phenotype identification highlighting indicated markers and major phenotype colocalization. i, j Cell frequency as a percent of total cells detected by CODEX for the indicated cell subsets. For panels (d),(i),(j), mean ± SEM; n=number of patients; each dot represents one FOV for MIBI or one core for CODEX; multiple one-way ANOVA Kruskal-Wallis test with FDR correction; q < 0.1 threshold for discovery; ns not significant.