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  TT-seq captures enhancer landscapes immediately after T-cell stimulation.

Michel, M., Demel, C., Zacher, B., Schwalb, B., Krebs, S., Blum, H., et al. (2017). TT-seq captures enhancer landscapes immediately after T-cell stimulation. Molecular Systems Biology, 13(3): 920. doi:10.15252/msb.20167507.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-002C-A0A4-B Version Permalink: http://hdl.handle.net/11858/00-001M-0000-002C-A1E5-F
Genre: Journal Article

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 Creators:
Michel, M.1, Author              
Demel, C.1, Author              
Zacher, B., Author
Schwalb, B.1, Author              
Krebs, S., Author
Blum, H., Author
Gagneur, J., Author
Cramer, P.1, Author              
Affiliations:
1Department of Molecular Biology, MPI for Biophysical Chemistry, Max Planck Society, ou_1863498              

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Free keywords: T‐cell response; enhancers; functional genomics; promoters; transcriptome analysis
 Abstract: To monitor transcriptional regulation in human cells, rapid changes in enhancer and promoter activity must be captured with high sensitivity and temporal resolution. Here, we show that the recently established protocol TT-seq ("transient transcriptome sequencing") can monitor rapid changes in transcription from enhancers and promoters during the immediate response of T cells to ionomycin and phorbol 12-myristate 13-acetate (PMA). TT-seq maps eRNAs and mRNAs every 5 min after T-cell stimulation with high sensitivity and identifies many new primary response genes. TT-seq reveals that the synthesis of 1,601 eRNAs and 650 mRNAs changes significantly within only 15 min after stimulation, when standard RNA-seq does not detect differentially expressed genes. Transcription of enhancers that are primed for activation by nucleosome depletion can occur immediately and simultaneously with transcription of target gene promoters. Our results indicate that enhancer transcription is a good proxy for enhancer regulatory activity in target gene activation, and establish TT-seq as a tool for monitoring the dynamics of enhancer landscapes and transcription programs during cellular responses and differentiation.

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Language(s): eng - English
 Dates: 2017-03-07
 Publication Status: Published online
 Pages: -
 Publishing info: -
 Table of Contents: -
 Rev. Method: Peer
 Identifiers: DOI: 10.15252/msb.20167507
 Degree: -

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Title: Molecular Systems Biology
Source Genre: Journal
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Pages: 13 Volume / Issue: 13 (3) Sequence Number: 920 Start / End Page: - Identifier: -