人成纤维细胞中lncRNA DDSR1敲低后的基因表达分析。

Gene expression analysis upon lncRNA DDSR1 knockdown in human fibroblasts.

作者信息

Jia Li, Sun Zhonghe, Wu Xiaolin, Misteli Tom, Sharma Vivek

机构信息

CCR Collaborative Bioinformatics Resource (CCBR), National Cancer Institute, NIH, Bethesda, MD 20892, USA.

Cancer Research Technology Program, Leidos Biomedical Research, Inc., Frederick National Laboratory for Cancer Research, Frederick, MD 21702, USA.

出版信息

Genom Data. 2015 Oct 23;6:277-9. doi: 10.1016/j.gdata.2015.10.017. eCollection 2015 Dec.

DOI:10.1016/j.gdata.2015.10.017

PMID:26697398

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC4664778/

Abstract

Long non-coding RNAs (lncRNAs) play important roles in regulating diverse biological processes including DNA damage and repair. We have recently reported that the DNA damage inducible lncRNA DNA damage-sensitive RNA1 (DDSR1) regulates DNA repair by homologous recombination (HR). Since lncRNAs also modulate gene expression, we identified gene expression changes upon DDSR1 knockdown in human fibroblast cells. Gene expression analysis after RNAi treatment targeted against DDSR1 revealed 119 genes that show differential expression. Here we provide a detailed description of the microarray data (NCBI GEO accession number GSE67048) and the data analysis procedure associated with the publication by Sharma et al., 2015 in EMBO Reports [1].

摘要

长链非编码RNA（lncRNA）在调控包括DNA损伤与修复在内的多种生物学过程中发挥着重要作用。我们最近报道了DNA损伤诱导的lncRNA——DNA损伤敏感RNA1（DDSR1）通过同源重组（HR）调控DNA修复。由于lncRNA也能调节基因表达，我们在人成纤维细胞中鉴定了DDSR1敲低后的基因表达变化。针对DDSR1的RNA干扰处理后的基因表达分析揭示了119个呈现差异表达的基因。在此，我们详细描述了微阵列数据（NCBI GEO登录号GSE67048）以及与Sharma等人于2015年发表在《EMBO报告》[1]上的论文相关的数据分析程序。