Fig. 5

Spatial transcriptomics workflow including the downstream analysis. a Histological tumor sections are stained with hematoxylin and eosin-stained and imaged before permeabilization. b The sections are placed on glass slides containing RT-primers arrayed as spots that corresponded to tissues domains. The barcoded microarrays contain printed spots of RT-primers with unique barcode sequences. The RT-primers at each spot have a unique spatial ID barcode, which is sequenced along with the transcript to enable trace-back to a specific tissue domain. c Sequencing. d After sequencing the gene expression profiles and factor activity map are created