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. 2023 Apr 18;3(4):621–639. doi: 10.1158/2767-9764.CRC-22-0389

FIGURE 4.

FIGURE 4

1α,25(OH)2D3-dependent RNA- and small RNA-Seq in AA and EA cell lines. A and B, Basal and 1α,25(OH)2D3-stimulated (100 nmol/L, 8 hours) RNA-seq was undertaken in triplicate in HPr1AR, LNCaP, RC43N, and RC43T. FASTQ files were QC processed, aligned to hg38 (Rsubread), and processed with limma-voom and edgeR workflow to identify significant DEGs (logPV > 1 and absFC > 0.37) are illustrated on Volcano plots with top DEGs illustrated. C, GSEAs (Chemical Perturbations in GSEA) was undertaken and the terms identified and visualized where the NES was in the opposite direction are visualized in RC43N and RC43T.