p53-inducible long non-coding RNAs encode functional peptides in hepatocellular carcinoma cells [RNA-seq]

To identify p53-regulated lncRNAs responsive to DNA damage in human hepatocellular carcinoma (HCC) cells, we conducted paired-end and strand-specific RNA-seq using HepG2 wild-type and p53-knockout (HepG2-KO-p53) cells, which were devoid of p53 protein, using the CRISPR-Cas9 system treated with or without the DNA-damaging agent adriamycin (ADR) RNA-seq profiles of HepG2 p53 wild-type (WT) and HepG2 p53 knockout (p53−/−) treated with ADR or not were generated by deep sequencing, in two independent experiments, using Illumina Xten. Raw RNA-seq data reads were aligned to the UCSC hg19 reference genome using Hisat2 (version 2.0.5) with default parameters.