Fig. 6: Regulons form modules and coordinate their activity within cell types.
From: Decoding the gene regulatory network of endosperm differentiation in maize
a Ranking of regulons in cluster 0 based on the regulon specificity score (RSS). b Cluster 0 cells are highlighted in the UMAP plot (red dots). c Binarized regulon activity scores (RAS) (Z score normalized across all samples, and 0.15 is set as the cutoff to convert to 0 and 1) for a regulon (BZIP52) with the top RSS value on UMAP plot (dark green dots). d–f Same as (a–c) but for cluster 9 and regulon MYBR21; 0.079 set as the RAS cutoff. g–i Same as (a–c) but for cluster 1 and regulon BZIP104; 0.004 set as the RAS cutoff. j–l Same as (a–c) but for cluster 11 and regulon NACTF65; 0.048 set as the RAS cutoff. m Heatmap showing gene-expression pattern during differentiation of AL (fate1), SE (fate2) along pseudotime. n Identified regulon modules along with selected TFs and corresponding binding motifs. o Heatmap showing average activity scores of 10 modules in different cell clusters. p Network of relatedness for the selected 12 cell clusters constructed based on similarities between regulon activities. q Sankey plot displaying relationships between cell cluster and the top 3 regulons in modules M1–M10.
