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. 2022 Feb 10;13:795. doi: 10.1038/s41467-022-28445-y

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© The Author(s) 2022

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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Fig. 2 — a, b Sensitivity of spatial gene expression measurements. Mean number of unique molecules detected (y axis) at different proportions of annotated reads (x axis) in a SM-Omics (blue, n = 3) and ST (red, n = 3) and b SM-Omics (blue, n = 3) and Visium (green, n = 3). Shaded areas: 95% confidence intervals. Colored line: mean of summarized library values (n = 3) per condition. c Performance of automated spatial library preparation reactions. Impact of ligation reaction times and adapter concentrations on quantitative concentrations (Cq) values for automated prepared libraries (n = 9). Cq values were measured at Fluorescent unit 10,000. Statistical significance (two-sided Wilcoxon’s rank-sum test) markings are displayed: 0.05 < p ≤ 1 (ns), 0.001 < p ≤ 0.01 (**), 0.0001 < p ≤ 0.001 (***). Center black line, median; color-coded box, interquartile range; error bars, 1.5x interquartile range; black dots; outliers. Individual reaction conditions are detailed in Methods. d, e Spatial gene expression. d Examples of SM-Omics spatial gene expression patterns (normalized expression shown in color scale) detected in each of the major histological regions in the MOB of an adult mouse brain and e corresponding in situ hybridization images from ABA (Image credit: Allen Institute for Brain Science, Methods) for the same genes as in d with illustrated and highlighted region annotation patterns. Annotated region abbreviations: GL (glomerular layer), GR (granular cell layer), MI (mitral layer), OPL (outer plexiform layer) and ONL (olfactory nerve layer).