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Fig. 4 | Cell & Bioscience

Fig. 4

From: Dual function of SF3B2 on chromatin and RNA to regulate transcription in head and neck squamous cell carcinoma

Fig. 4

SF3B2-binding to chromatin and RNA are differently correlated with the level of mRNA expression. A, B Cumulative distribution plots of gene expression changes or nascent transcript expression in GFP-SF3B2-expressing A or siSF3B2-treated B FaDu cells. Genes were stratified into four categories: genes with SF3B2 PAR-CLIP and CUT&Tag peaks (PAR/CUT); genes with SF3B2 PAR-CLIP peaks (PAR/−); genes with CUT&Tag peaks (−/CUT); genes without SF3B2 peaks (−/−). P value was calculated using the Wilcox rank sum test. C Representative GO enrichment of SF3B2 CUT&Tag signals at 909 TSSs with the score of sum of the SF3B2 signal from − 200 to 2000 around TSS and log2 fold change > 2 in comparison to H3. D Box plots of Pol2 pausing index in genes with (n = 1077) or without (n = 27,097) SF3B2 CUT&Tag signal at TSS. P value was calculated using the Wilcox rank sum test. E, F Box plots of log2 fold change of gene and nascent transcript expression upon siSF3B2 treatment E or GFP-SF3B2 expression F. RPS, Ribosomal protein S genes; IEG, immediate early genes; Other, other genes from RPS and IEG. E Left: Other (n = 18,476), RPS (n = 93), and IEG (n = 114). Right: Other (n = 27,818), RPS (n = 157), and IEG (n = 199). F Left: Other (n = 17,440), RPS (n = 93), and IEG (n = 114). Right: Other (n = 27,818), RPS (n = 157), and IEG (n = 199). P value was calculated using the Wilcox rank sum test. G Line plots of mRNA abundance. Each value was normalized to non-treated as 1.0 and then to 18S RNA. Error bars indicate mean ± SD, n = 3 biologically independent samples. * P < 0.001. P value was calculated using the Student’s t-test

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