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. 2026 Feb 16;17:1733427. doi: 10.3389/fpls.2026.1733427

Figure 8.

Three Venn diagrams compare differentially expressed genes among three groups: early versus mid, mid versus late, and early versus late stages. Panel A shows all DEGs, panel B shows only upregulated DEGs, and panel C shows only downregulated DEGs, with each diagram displaying unique and shared gene counts for each comparison.

Over-representation analysis (ORA) and Gene Set Enrichment Analysis (GSEA) of the entire data set for each of the three stage comparisons. (A) ORA and GSEA of early vs mid expression data. (B) ORA and GSEA of early vs late expression data. (C) ORA and GSEA of mid vs late expression data. Circle size corresponds to the number of genes up or downregulated within that GO term. Point colors of the ORA graphs correspond to the ontological category of the GO term. Shading of the GSEA points represents the -log10(FDR) of that GO term. Positive Normalized Enrichment Scores correspond to the process being more upregulated in the first time point of the respective graph and negative scores correspond to processes more upregulated in the second time point.