Extended Data Fig. 7: Transcriptome sequencing analysis after knockdown or knockout of lnc-CTHCC in HCC.
(a,b) Heat map showing the differentially expressed genes in Hep3B cells with lnc-CTHCC knockdown (A) and in liver cancer tissues from wild-type and knockout mice (B). (c) The RNA levels of YAP in Hep3B cells with lnc-CTHCC knockdown (n = 3 independent experiments, P = 0.0007, two-tailed paired t-test) or in the tumors from WT and KO mice (n = 3 mice per group, P < 0.0001, two-tailed unpaired t-test). Data are shown as mean ± SEM. (d) IHC staining of YAP in the xenograft tumors with lnc-CTHCC overexpression (scale bars = 50 μm). The results are representative of three biologically independent samples. (e) The RNA levels of YAP target genes (FGF2, CTGF, CYR61, CDC20 and SERPINE1) in MHCC97L cells with lnc-CTHCC knockdown. P values are as follows: P = 0.0006 (SERPINE1); P = 0.0048 (CDC20); P = 0.0035 (CTGF); P = 0.0004 (CYR61); P = 0.0004 (FGF2). (f) Luciferase reporter assays for YAP activity in Hep3B cells with sh-lnc-CTHCC and hnRNP K overexpression. P values are as follows: P < 0.0001 (sh-NC + NC and sh-lnc-CTHCC + NC); P = 0.0017 (sh-lnc-CTHCC + NC and sh-lnc-CTHCC + hnRNP K); P = 0.0008 (sh-NC + NC and sh-NC + hnRNP K). (g) The protein levels of YAP in Hep3B cells with sh-lnc-CTHCC and hnRNP K overexpression. The results are representative of three independent experiments. (h) The RNA levels of YAP in HCC and normal tissues from TCGA (P = 0.0001, two-tailed unpaired t-test) or in HCC and paired non-tumor tissues from the HCC cohort (n = 50 patients, P < 0.0001, two-tailed paired t-test). Data are shown as mean ± SEM. (i) Pearson correlation analysis between lnc-CTHCC expression and YAP expression (n = 50 patients, P < 0.0001). (J) Western blot assays of YAP in HCC and paired non-tumor tissues (n = 10 paired samples). (k) IHC staining of YAP from HCC tissues with relatively high or low lnc-CTHCC expression (scale bars = 50 μm). (l) Kaplan-Meier survival curves of OS from TCGA (P = 0.0413, log-rank test). For E-F, data are shown as mean ± SEM of three independent experiments. Two-tailed paired t-test was performed. **P < 0.01; ***P < 0.001; ****P < 0.0001.
