Extended Data Fig. 10: RAP2 mediates regulation of the ECM stiffness transcriptome by the Hippo pathway.

a, MA plot of wild-type cells in low stiffness versus wild-type cells in high stiffness. Three biologically independent samples were assayed for each condition. Differentially expressed genes (adjusted P value <0.1) are coloured red. P values for deferential expression were derived using the Wald test and corrected using the Benjamini–Hochberg procedure with default functions in DESeq2. b, Dot plot showing expression of AMOTL2 and LGR5. AMOTL2 and LGR5 are YAP- and TAZ-dependent and stiffness-regulated genes. High and low denote high stiffness (40 kPa) and low stiffness (1 kPa). Data are presented as mean ± s.e.m. n = 3 biologically independent samples. c, Venn diagram comparing genes downregulated by YAP and TAZ knockout at high stiffness and genes upregulated by LATS1 and LATS2 knockout at low stiffness. d, Venn diagram comparing genes upregulated by YAP and TAZ knockout at high stiffness and genes downregulated by LATS1 and LATS2 knockout at low stiffness. e, Venn diagram comparing overlapping genes from c and genes downregulated by low stiffness. f, Venn diagram comparing overlapping genes from d and genes upregulated by low stiffness. g, Venn diagram comparing overlapping genes from e and genes upregulated by RAP2 knockout at low stiffness. h, Venn diagram comparing overlapping genes from f and genes downregulated by RAP2 knockout at low stiffness. P values for c–h: hypergeometric test. Results represent analyses of three biological replicates for each condition.