Chromatin accessibility changes after CRISPR/Cas9-mediated knock-out of lncRNA LINC00607 in HUVEC [ATAC-seq]

Long non-coding RNAs (lncRNAs) are molecular switches in cellular differentiation, movement and in the reprogramming of cell states by altering gene expression patterns. However, in endothelial cells their role is not well understood. LINC00607 is an endothelial-enriched lncRNA. In order to uncover the functional relevance of LINC00607, an endothelial lentiCRISPR/Cas9-mediated knock-out was created and subjected to RNA- and ATAC-Seq, which revealed that LINC00607 is important for many pathways, among them VEGF- and TGF-beta-signalling. Overall design: 3 biolocial replicates of HUVEC non-target control (CTL) and LINC00607 CRISPR/Cas9 knock-out (KO), respectively.

长链非编码RNA（Long non-coding RNAs，lncRNAs）是一类通过改变基因表达模式，参与细胞分化、细胞迁移及细胞状态重编程的分子开关。然而，其在内皮细胞中的功能尚未被充分阐明。LINC00607是一种内皮富集的长链非编码RNA。为揭示LINC00607的功能相关性，研究人员构建了内皮细胞中慢病毒CRISPR/Cas9介导的LINC00607敲除模型，并对其开展RNA测序（RNA-Seq）与转座酶可及性染色质测序（ATAC-Seq），结果显示LINC00607对多条信号通路至关重要，其中包括血管内皮生长因子（VEGF）信号通路与转化生长因子β（TGF-β）信号通路。实验设计概述：分别设置人脐静脉内皮细胞（human umbilical vein endothelial cells，HUVEC）的非靶向对照（CTL）组与LINC00607 CRISPR/Cas9敲除（KO）组，每组均包含3次生物学重复。