Extended Data Fig. 6: Additional analysis of ST and IHC results between CTRL and IIM samples. | Nature Aging

Extended Data Fig. 6: Additional analysis of ST and IHC results between CTRL and IIM samples.

From: Cell type mapping of inflammatory muscle diseases highlights selective myofiber vulnerability in inclusion body myositis

Extended Data Fig. 6

a UMAP visualization showing ST spots colored by condition. b Bar plot showing compositional analysis of tissue niches in CTRL, IMNM and IBM muscle. c Box plots showing compositional analysis of tissue niches in CTRL (n = 3), IMNM (n = 2), and IBM (n = 3). Box plots show median and interquartile range (IQR) of tissue niche proportions, with whiskers extending to the largest and smallest values within 1.5 x IQR range. d Dot plot showing the top 7 up- and downregulated gene sets based on the NES in Niche 3 compared to all the other niches. % genes in set indicates the proportion of enriched genes within a gene set. The ‘signal_to_noise’ - method was used as statitistical test for data analysis. e Immunohistochemistry (IHC) showing expression of Laminin, p62, GADD45A, and RNF7 in CTRL and IMNM muscle on the protein level. Note purple arrowheads pointing at GADD45A+ myofibers, and green arrowheads pointing at p62+ myofibers. Scale bar (left and middle image) = 50 μm, scale bar (right image) = 20 μm. f Sketch showing links between genomic stress and functional denervation in IBM.

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