Extended Data Fig. 10: Tri-modal integration with MaxFuse on HUBMAP small bowel data.
From: Integration of spatial and single-cell data across modalities with weakly linked features
(A) Representative cell type spatial locations on CODEX HUBMAP small bowel tissue. (B) UMAP visualization of the tri-modal integration embedding produced by MaxFuse, colored by modality: Protein, RNA and ATAC (left panel) and colored by cell type (right panel). (C) Upper row: UMAP visualization of CODEX cells based on the integration embedding, overlaid with CD163 protein expression (from CODEX cells themselves, left panel), CD163 RNA expression (from matched snRNA-seq cells, middle panel), CD163 gene activity score (from matched snATAC-seq cells, right panel). Lower row: Spatial locations of CODEX cells based on their centroids’ x-y positions, overlaid with the same expression features as in the corresponding panels of the upper row. (D) Spatial locations of CODEX cells based on their centroids’ x-y positions, overlaid with the transcription factor motif enrichment scores (Z-scores, calculated by chromVAR60), based on their matched snATAC-seq cells.
