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. 2023 Jan 31;14:509. doi: 10.1038/s41467-023-36071-5

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© The Author(s) 2023

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. 6 — a Average numbers of unique genes are highlighted by dashed lines for each protocol next to the violin plots. The y-axis represents log10-scaled counts. 1 tissue section was processed with the standard Visium protocol for P4 and P11, and 2 tissue sections for each timepoint (P4, P11) with the RRST protocol. b Following NNMF, Factors 12 and 2 associated with resting and proliferating chondrocytes. c Factors 1 and 11 associated with hypertrophic chondrocytes and primary spongiosa. d Factor 6 associated with the cruciate ligament. e Factor 7 associated with Perichondrium and periosteum. Spot colors represent the factor activity, i.e., the contribution of each spot to the factor. The spot opacity has been scaled by the factor activity scores, making spots with lower scores more transparent.