ATAC-Seq analysis of MC38 colon carcinoma cells and MC38 Bap1-knockout cells
ATAC-Seq analysis of MC38 colon carcinoma cells and MC38 Bap1-knockout cells
After the 1000u/ml IFN-β stimulation for 48 hours, the tumor were collected and lysed in order to extract the cell nucleus. The DNA in the nucles was processed by transposition reaction using Tn5 Transposase and purified follow the instructions. Adapters in the reads were trimmed using fastp (PMID 30423086) with the “--detect_adapter_for_pe” flag. The trimmed reads were aligned to the mouse reference genome (mm10) using hisat2 (PMID 3137580) with the “--no-temp-splicesite --no-spliced-alignment” flags.