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Noncoding RNA transcriptome analysis during cellular reprogramming

ABSTRACT: We report the application of single-cell and bulk RNA sequencing technology to examine the noncoding transcriptome of cells undergoing reprogramming to the pluripotent state. Examination of noncoding RNAs in reprogrammming cells. We examined iPS cells grown in standard ES cell culture conditions, as well as iPS cells grown in "2i" conditions (small molecule inhibition of Mek and Gsk3). We also compared our iPS samples to male and female ES cells (mES, fES).

ORGANISM(S): Mus musculus

SUBMITTER: Diane Trout

PROVIDER: E-GEOD-55291 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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

Kim Daniel H DH Marinov Georgi K GK Pepke Shirley S Singer Zakary S ZS He Peng P Williams Brian B Schroth Gary P GP Elowitz Michael B MB Wold Barbara J BJ

Cell stem cell 20150101 1

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 ...[more]

PMID: 25575081

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