Fig. 4: Gene module specificity in cell cycle stages and within cell subsets. | Communications Biology

Fig. 4: Gene module specificity in cell cycle stages and within cell subsets.

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

Fig. 4

A, B Gene modules associated with the cell cycle. Gene modules were identified from the Tabula Muris bone marrow FACS dataset, and their function was classified by Reactome pathway analysis. Modules 22, 20, and 19 were associated with S phase, S/G2/M and G2/M phases, respectively. A Bubble plot of the top 5 significantly enriched Reactome pathways (Benjamini-Hochberg adjusted p-value < 0.05) for each module. Bubble color indicates -log10-adjusted p-value, and the size represents the fraction of module genes associated with the pathway. B Module scores in two Tabula Muris bone marrow datasets, and reference cell-cycle annotation from Seurat (left). C Gene modules associated with B cells at different stages of maturation. Module 7 is associated with pro-B cells, module 6 with pre-pro-B cell, module 2 with immature and mature B cells, and module 3 with naive B cells. D Gene modules associated with the production of granulocytes. Module 8 contains genes expressed during granulocytopoiesis, module 15 contains genes common for granulocytopoietic cells and granulocytes, module 11 contains genes involved in granulocyte maturation, and module 10 may represent a rare granulocyte subgroup.

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