Fig. 4: STAMP delineates different cortex layers across multiple Visium mouse brain tissue sections.
From: Interpretable spatially aware dimension reduction of spatial transcriptomics with STAMP
a, Hematoxylin and eosin (H&E) image of the mouse brain anterior and posterior sections. b, Boxplots of module coherence and module diversity scores of STAMP and five competing methods obtained over five different runs with different seeds. In the box plot, the center line denotes the median, box limits denote the upper and lower quartiles and whiskers denote 1.5 × interquartile range. c, Annotated mouse brain sagittal section image from the Allen Mouse Brain Atlas. d, Spatial topics returned by STAMP and the five competing methods. Each topic was binarized for ease of visualization in a single figure. e, Layers of the cerebral cortex specifically identified by STAMP. f, Gene module rankings (number) and scores (color) of known gene markers in different layers of the brain.
