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  TT-seq maps the human transient transcriptome.

Schwalb, B., Michel, M., Zacher, B., Frühauf, K., Demel, C., Tresch, A., et al. (2016). TT-seq maps the human transient transcriptome. Science, 352(6290), 1225-1228. doi:10.1126/science.aad9841.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-002A-D545-9 Version Permalink: http://hdl.handle.net/11858/00-001M-0000-002D-1BC4-7
Genre: Journal Article

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2304370.pdf (Publisher version), 2MB
 
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 Creators:
Schwalb, B.1, Author              
Michel, M.1, Author              
Zacher, B., Author
Frühauf, K., Author
Demel, C.1, Author              
Tresch, A., 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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 Abstract: Pervasive transcription of the genome produces both stable and transient RNAs. We developed transient transcriptome sequencing (TT-seq), a protocol that uniformly maps the entire range of RNA-producing units and estimates rates of RNA synthesis and degradation. Application of TT-seq to human K562 cells recovers stable messenger RNAs and long intergenic noncoding RNAs and additionally maps transient enhancer, antisense, and promoter-associated RNAs. TT-seq analysis shows that enhancer RNAs are short-lived and lack U1 motifs and secondary structure. TT-seq also maps transient RNA downstream of polyadenylation sites and uncovers sites of transcription termination; we found, on average, four transcription termination sites, distributed in a window with a median width of ~3300 base pairs. Termination sites coincide with a DNA motif associated with pausing of RNA polymerase before its release from the genome.

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Language(s): eng - English
 Dates: 2016-06-032016-06-03
 Publication Status: Published in print
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 Rev. Method: Peer
 Identifiers: DOI: 10.1126/science.aad9841
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Title: Science
Source Genre: Journal
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Pages: - Volume / Issue: 352 (6290) Sequence Number: - Start / End Page: 1225 - 1228 Identifier: -