Fig. 5: Integration of CODEX multiplexed imaging, snRNA-seq and snATAC–seq reveals genes associated with cellular neighbourhoods and regulatory TFs in the human intestine.
From: Organization of the human intestine at single-cell resolution
a, snRNA-seq and CODEX integration using MaxFuse for both the small bowel and colon. Integrated cells are coloured by modality of origin, cell types or RNA/protein expression levels. MUC2 expression (protein and RNA) is shown on the integrated plots, as well as the top 10 DEGs of the Inner Follicle neighbourhood as determined by CODEX. Min., minimum. CN, cellular neighbourhood. b, TFs of which the integrated gene expression correlated with their motif activity in one region of the intestine. Row z-scores of ChromVar deviation scores are shown on the left and row z-scores of integrated TF expression are shown on the right. Ent., enterocytes. abs., absorptive.
