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. 2018 May 29;115(25):6482–6487. doi: 10.1073/pnas.1803861115

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Fig. 2. — Light-induced genome-wide transcriptional changes are largely mediated by PIFs, EIN3/EIL1, and HY5. (A) Venn diagram showing overlaps among genes regulated by light, pifQ, pifQee, and HY5ox/pifQee. The seedlings were grown for 4 d in the dark (D4) or in R4. (B) Expression levels of the PIFs/EIN3/HY5- and light-coregulated 3,267 genes in different genotypes. The FPKM values of these genes were normalized based on the Z-score method. (C) Box plot representation of the PIFs/EIN3/HY5-mediated light down-regulated (Left) or light up-regulated (Right) gene FPKM values in different genotypes. **P < 0.01, Wilcoxon test. (D and E) Gene ontology analysis of the light down-regulated (D), or light up-regulated (E) genes mediated by the PIFs/EIN3/HY5 pathway.