Fig. 5: Comparative analysis of gene modules between samples in DC genesis. | Communications Biology

Fig. 5: Comparative analysis of gene modules between samples in DC genesis.

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

Fig. 5

A Module scores of three cell cycle-associated gene modules on E13.5 SmoM2 and paired WT, with cell cycle annotations obtained from Seurat for reference (left). Different UMAP embeddings: by top 2000 HVGs of E13.5 SmoM2 (first row), top 2000 HVGs of E13.5 WT (second row), and merged embeddings of E13.5 SmoM2 and E13.5 WT by Seurat cell cycle genes (third row: SmoM2; fourth row: WT). B Module scores of three Wnt-associated gene modules on E13.5 SmoM2 (first row), paired E13.5 WT (second row) and E14.5 WT (third row). C Left: Cells categorized by three Wnt-associated gene modules (module score > 0.5, mutually exclusive: cells assigned to innermost module). Right: Lef1 (Wnt) level in three modules: The box represents the interquartile range (IQR), with the line inside the box indicating the median. Whiskers extend to a maximum of 1.5 × IQR beyond the box, with outliers represented as individual points. A Wilcoxon test was performed between adjacent boxes, with “NS” for p > 0.05 and “***” for p < 0.001.

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