Fig. 3

Biological function analysis of the most commonly altered DEGs in UpSet plots. A The UpSet plot shows the number of shared DEGs between the tissues and the maturation stages. The horizontal bar graphs and written numbers on the left of intersection matrix represent the numbers of DEGs between two compared conditions. The X-axis in the upper graph represents the number of DEGs corresponding to the lower filled dots, with counts of fewer than 10 DEGs excluded. The sets of connected filled dots indicate a specific intersection of DEGs among the maturation stages in the embryo and endosperm. Red bars, arrows, and dots indicate the up-regulated DEGs, while the blue bars, arrows, and dots indicate the down-regulated DEGs. B GO terms based on 2,091 DEGs down-regulated from 45 to 60 DAH and 30 to 60 DAH in the embryo. The Y-axis indicates the enriched GO terms, and the X-axis indicates the amount of fold enrichment of the GO terms. The top ten GO terms associated with “biological process”, “molecular function”, and “cellular component”, based on fold enrichment > 2 and FDR < 0.05 were selected. The KEGG pathway terms were not identified via the KEGG enrichment analysis