Combined RNA-seq and RAT-seq mapping of long noncoding RNAs in pluripotent reprogramming

Year: 2018

Type: data-paper

Abstract: 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.

Source: Scientific Data

DOI: 10.1038/sdata.2018.255

Authors: Zhonghua Du, Lin Jia, Yichen Wang, Cong Wang, Xue Wen, Jingcheng Chen, Yanbo Zhu, Dehai Yu, Lei Zhou, Naifei Chen, Shilin Zhang, Ilkay Celik, Ferhat Ay, Sujun Gao, Songling Zhang, Wei Li, Andrew R. Hoffman, Jiuwei Cui, Ji-Fan Hu

Institutions: Jilin University, First Hospital of Jilin University, VA Palo Alto Health Care System, Stanford University, La Jolla Institute for Immunology

Language: English

Topic: Pluripotent Stem Cells Research

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: gold

Estimated APC paid: $2,490

Funders: U.S. Department of Veterans Affairs, California Institute of Regenerative Medicine, Natural Science Foundation of Jilin Province, National Natural Science Foundation of China, People's Government of Jilin Province, National Key Research and Development Program of China

OpenAlex ID: W2901530972