Long Non-Coding RNA LEENE Promotes Angiogenesis and Ischemic Recovery (ChIRP-Seq)

Chromatin-associated long non-coding RNAs (ca-lncRNAs) play important roles in transcriptional regulation. To comprehensively investigate the chromatin interactome of an enhancer-derived ca-lncRNA, LEENE, we performed the Chromatin isolation by RNA purification (ChIRP) to pull down LEENE-associated DNAs, which were subjected to DNA-seq. Specifically, we used 10 previously validated tiling nucleotides targeting different domains based on the predicted secondary structure. LEENE was overexpressed by adenovirus to enhance the ChIRP-seq signals. Overall design: Chromatin isolation by RNA purification from HUVEC treated with Adenovirus-overexpressing GFP or LEENE for 3 days, followed by DNA-seq.