Figure S3. RNA-seq analysis indicates TNF signaling pathway activation in M3^−/− crypts.

(A) TNF signaling pathway (mmu04668) maps derived from Database for Annotation, Visualization, and Integrated Discovery analysis. Green boxes and arrows indicate the genes and interactions in the pathway. +p and −p denote phosphorylation and dephosphorylation, respectively. The genes with red stars are those that were up-regulated in M3^−/− crypts. (B) Differential expression patterns of TNFR2, ASK1, TAB1/2/3, Tak1, Nik, Tpl2, MKK4/7, MKK3/6, JNK1/2, p38, ERK1/2, Casp7, and Nod2 in M3^−/− crypts. Data information: The results of RNA-seq are based on three independent experiments and are presented as mean values ± SD. The statistical significance was calculated with t test (*P < 0.05 and **P < 0.005).

Source data are available online for this figure.