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. 2023 Dec 7;194(4):2117–2135. doi: 10.1093/plphys/kiad629

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© The Author(s) 2023. Published by Oxford University Press on behalf of American Society of Plant Biologists.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 2. — Reproductive tract transcriptomic comparison of wild-type and hda19-3 flowers. A) Venn diagrams showing the overlap of up- and downregulated genes (FDR < 0.001 and logFC > |1.5|) detected by Cufflinks, EdgeR, and DeSeq2. B) Enrichment analysis of “Biological Process” GO terms associated with upregulated genes (logFC > |1.5|) detected by all three programs. C) Enrichment analysis of “Biological Process” GO terms associated with downregulated genes (logFC > |1.5|) detected by all three programs (fold enrichment > 4). Graphs show overrepresented child-most (tip) GO terms. Parent GO terms (root terms) have not been plotted for simplicity. Enrichment analysis was performed using Panther (Mi et al. 2018, 2019) with the default parameters set by the program.