Figure 2.

Spatial transcriptomics workflow including the downstream analysis. (A) Histological tumor sections are annotated by a pathologist and sections of interest are stained with hematoxylin and eosin before permeabilization. (B) The sections are placed on glass slides containing RT-primers arrayed as spots that correspond to tissues domains. 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, D) After sequencing, gene expression profiles and factor activity maps are created.