Fig. 3: SpotClean improves marker specificity in human brain sample LIBD_151507.

a Known annotation of different layers of the human brain sample LIBD_151507 (left); layer-specific marker gene expression in the raw (middle) and SpotClean decontaminated (right) data show that SpotClean provides improved specificity of marker gene expression for GFAP, a marker for WM and Layer1, and for SNAP25, a neuronal marker up-regulated in Layer2–Layer6. b An analysis of genes known to be differentially expressed (DE) between WM and Layer6 in raw and SpotClean decontaminated data shows that SpotClean results in increased fold-changes (FC) and smaller p-values for the majority of known DE genes.