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. Author manuscript; available in PMC: 2021 May 18.
Published in final edited form as: Dev Cell. 2020 May 7;53(4):473–491.e9. doi: 10.1016/j.devcel.2020.04.009

Figure 6. Cross-Species Comparisons of Gene Usage Using scCoGAPS and ProjectR Reveals Conserved and Divergent Pattern Usage across Human and Mouse Retinal Cell Types.

Figure 6.

(A) Plot indicating maximally correlated retinal cell types in mouse (y axis) and human (x axis) of human patterns. Correlation values are indicated through size of the point for human cell types, and color of the dot and label for mouse cell types.

(B) Heatmap indicating the intersection of correlations of Human Pattern 75 for human (x axis) and mouse (y axis) cell types.

(C and D) UMAP embeddings of (C) human and (D) mouse scRNA-seq datasets, with cells colored by Human Pattern 75 pattern weights.

(E) Heatmap of relative gene expression within (top) human or (bottom) mouse cell types for the top 50 weighted genes of Human Pattern 75. Genes are ordered by relative gene weights.

(F and G) UMAP embeddings displaying LOXL1/Loxl1 expression within (F) human and (G) mouse retinal scRNA-seq datasets.

(H) Plot of maximally correlated retinal cell types in mouse (y axis) and human (x axis) of mouse patterns. Correlation values are indicated through size of the point for human cell types, and color of the dot and label for mouse cell types.

(I) Heatmap indicating the intersection of correlations of Mouse Pattern 20 for human (x axis) and mouse (y axis) cell types.

(J and K) UMAP embeddings of (J) human and (K) mouse scRNA-seq datasets, with cells colored by Mouse Pattern 20 pattern weights.

(L) Heatmap of relative gene expression within (top) mouse or (bottom) human cell types for the top 50 weighted genes of Mouse Pattern 20 and their orthologs in human (bottom). Genes are ordered by relative gene weights.

(M and N) Boxplots displaying the log2(expression + 1) of TUBB4B in each (M) human and (N) mouse retinal cell type. Abbreviations: AC/HC Pre., amacrine cell/horizontal cell precursors; RGCs, retinal ganglion cells; RPCs, retinal progenitor cells; BC/Photo Pre, bipolar cell/photoreceptor precursors; Photo Pre, photoreceptor precursors; hPatt, human pattern; mPatt, mouse pattern.