RNA-seq of mice 3
IECs from wild-type littermate control mice were isolated as described in Isolation of IEC in the intestine. Total RNAs were extracted with TRNzol universal RNA Reagen kits. Berrygenomics (Beijing, China) processed the total RNA and constructed the mRNA libraries, and subject them to standard illumine sequencing on Novaseq 6000 system, and obtained > 40 million Pair-end 150 reads for each sample. Raw RNA-sequencing reads were aligned to the mouse genome (mm10, GRCm38) with STAR (v2.5.3a). Gene expression levels and differential analysis was performed with edgeR(v3.29.2). Genes were considered significantly differentially expressed if showing 1.5-fold change and FDR < 0.05. Gene set analysis was performed and enriched pathways were obtained through online bioinformatics tools (metascape) and GSEA (v4.0.3).