Fig. 6: A gene module capturing mutant-specific cell subsets. | Communications Biology

Fig. 6: A gene module capturing mutant-specific cell subsets.

From: Cluster-independent multiscale marker identification in single-cell RNA-seq data using localized marker detector (LMD)

Fig. 6

A Module scores of module 12 on E13.5 SmoM2 (first row, columns 2 and 4) and paired WT (first row, column 5), and E14.5 SmoM2 (second row, columns 2 and 4) and paired WT (second row, column 5), with cell cycle annotations from Seurat (columns 1 and 3). Activated cells (module score > 0.5) in E13.5 SmoM2: 114 G1, 34 G2M, 9 S cells; in E14.5 SmoM2: 44 G1, 16 G2M, 4 S cells. UMAP embeddings: standard scaling (columns 1, 2 and 5) and scaling regressing out cell cycle scores (columns 3 and 4). B FISH images (scale bar = 50 μm) showing the spatial distribution of Trp53inp1 in the upper dermis of SmoM2 pulsed with EdU at E14.5 (first row) and 24 h prior at E13.5 (second row). EdU is a nucleotide that is incorporated by cells in the S phase. C %EdU+ of Trp53inp1+ cells at E13.5 and E14.5, pulsed with EdU (EdU 1hr) and 24 h prior (EdU 24hr). Data as mean ± SEM (n = 3), one-way ANOVA with Tukey’s HSD test was performed between groups, with “NS” for p > 0.05, “*” for p < 0.05, “**” for p < 0.01.

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