Illumina NovaSeq 6000 paired end sequencing
RNAseq of colon ulcers and distant normal colon tissue from biopsy-wounded wild-type and Vil1-Cre;Rosa26Bmp4 mice at 1 day and 3 days post-wounding
Colon ulcers and distant normal colon tissue were excised from biopsy-wounded wild-type and Vil1-Cre;Rosa26Bmp4 mice at 1 day and 3 days post-wounding and stored in RNAlater (ThermoFisher) at -80 C prior to extraction. Total RNA was extracted using the RNeasy Mini Kit (Qiagen), with on-column DNAse treatment. mRNA purification, double-stranded cDNA generation and library construction were performed using the NEBNext Poly(A) mRNA Magnetic Isolation Module (E7490, New England Biolabs) and the NEBNext Ultra II Directional RNA Library Prep Kit for Illumina (E7760L, New England Biolabs) with in-house adapters and barcode tags (using dual indexing, based on doi:10.1186/1472-6750-13-104).