Single-cell transcriptome analysis reveals dynamic changes in IncRNA expression during reprogramming

82Citations
Citations of this article
375Readers
Mendeley users who have this article in their library.

Abstract

Cellular reprogramming highlights the epigenetic plasticity of the somatic cell state. Long noncoding RNAs (lncRNAs) have emerging roles in epigenetic regulation, but their potential functions in reprogramming cell fate have been largely unexplored. We used single-cell RNA sequencing to characterize the expression patterns of over 16,000 genes, including 437 lncRNAs, during defined stages of reprogramming to pluripotency. Self-organizing maps (SOMs) were used as an intuitive way to structure and interrogate transcriptome data at the single-cell level. Early molecular events during reprogramming involved the activation of Ras signaling pathways, along with hundreds of lncRNAs. Loss-of-function studies showed that activated lncRNAs can repress lineage-specific genes, while lncRNAs activated in multiple reprogramming cell types can regulate metabolic gene expression. Our findings demonstrate that reprogramming cells activate defined sets of functionally relevant lncRNAs and provide a resource to further investigate how dynamic changes in the transcriptome reprogram cell state.

Cite

CITATION STYLE

APA

Kim, D. H., Marinov, G. K., Pepke, S., Singer, Z. S., He, P., Williams, B., … Wold, B. J. (2015). Single-cell transcriptome analysis reveals dynamic changes in IncRNA expression during reprogramming. Cell Stem Cell, 16(1), 88–101. https://doi.org/10.1016/j.stem.2014.11.005

Register to see more suggestions

Mendeley helps you to discover research relevant for your work.

Already have an account?

Save time finding and organizing research with Mendeley

Sign up for free