Combined RNA-seq and RAT-seq mapping of long noncoding RNAs in pluripotent reprogramming.
Combined RNA-seq and RAT-seq mapping of long noncoding RNAs in pluripotent reprogramming.
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多能重编程中长非编码 RNA 的组合 RNA-seq 和 RAT-seq 作图
DOI：
10.1038/sdata.2018.255
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发表时间：
2018-11-20
期刊：
影响因子：
9.8
通讯作者：
Hu JF
中科院分区：
文献类型：
--
作者：
Du Z;Jia L;Wang Y;Wang C;Wen X;Chen J;Zhu Y;Yu D;Zhou L;Chen N;Zhang S;Celik I;Ay F;Gao S;Zhang S;Li W;Hoffman AR;Cui J;Hu JF
多能干细胞在发育生物学和再生医学方面具有巨大的研究潜力。最近的研究表明，长链非编码RNA（lncRNA）可能是干细胞维持和谱系分化的关键调控因子。然而，lncRNA影响体细胞重编程为多能细胞的过程的潜在机制在很大程度上仍然未知。我们使用处于重编程不同阶段的成纤维细胞和诱导多能干细胞（iPSC），进行了RNA转录组测序（RNA-Seq），以鉴定与多能性相关的差异表达的lncRNA。然后利用RNA逆转录相关陷阱测序（RAT-seq）方法来生成数据库以映射lncRNA候选物的调控元件网络。这些数据集的整合可以促进与重编程相关的功能性lncRNA的鉴定。调节多能性的lncRNA的鉴定可能会为再生医学中增强iPSC诱导带来新的策略。
Pluripotent stem cells hold great investigative potential for developmental biology and regenerative medicine. Recent studies suggest that long noncoding RNAs (lncRNAs) may function as key regulators of the maintenance and the lineage differentiation of stem cells. However, the underlying mechanisms by which lncRNAs affect the reprogramming process of somatic cells into pluripotent cells remain largely unknown. Using fibroblasts and induced pluripotent stem cells (iPSCs) at different stages of reprogramming, we performed RNA transcriptome sequencing (RNA-Seq) to identify lncRNAs that are differentially-expressed in association with pluripotency. An RNA reverse transcription-associated trap sequencing (RAT-seq) approach was then utilized to generate a database to map the regulatory element network for lncRNA candidates. Integration of these datasets can facilitate the identification of functional lncRNAs that are associated with reprogramming. Identification of lncRNAs that regulate pluripotency may lead to new strategies for enhancing iPSC induction in regenerative medicine.