Fig. 5: SIMO reconstructed spatial multi-omics organization of mouse cerebral cortex.
From: Spatial integration of multi-omics single-cell data with SIMO
a Spatial integration results of mouse cerebral cortex data. Spots and cells are colored according to different categories. b, c The box plot shows the distance between the main cell groups in the single-cell transcriptome data (b) and single-cell DNA methylation data (c) after spatial mapping and the innermost C6 group in the ST data. Different cell types are included, with varying sample sizes for each cell type (n = 50 for Layer2/3, n = 351 for Layer5a, n = 120 for Layer5, n = 265 for Layer5b, n = 454 for Layer6, n = 237 for mL2/3, n = 92 for mL4, n = 94 for mL5-2, n = 50 for mL6-1 and n = 333 for mL6-2). In the box plots, the range of each box extends from the first to the third quartile, with the horizontal line representing the median. The whiskers extend to 1.5 times the interquartile range beyond the lower and upper bounds of the box. Source data are provided as a Source Data file. d, e SIMO mappings of Layer5a cells, with cells color-coded based on DNA methylation cell types (d) and RNA clusters (e).
