Extended Data Fig. 5: Cross-replicate consistency of spatial transcriptomic profiles across tissue sections.

(a-c) UMAP projections of aggregated, normalized gene expression profiles from each anatomical region in each replicate, from each tissue section, showing that the same regions from different replicates cluster closely together. Each point represents one replicate–region aggregate, colored by anatomical identity. Distinct separation between regions with minimal mixing across replicates demonstrates low replicate-specific variation relative to biological differences. (d) Ranked barplot showing median pairwise Pearson correlation coefficients between aggregated profiles from the same anatomical region across replicates. Bars are colored by anatomical identity, and error bars represent the interquartile range (IQR). Median correlations range from 0.81 to 0.97, with the majority of regions exceeding 0.93, indicating high reproducibility of spatial transcriptomic profiles despite random bead layouts.