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  Parallel profiling of the transcriptome, cistrome, and epigenome in the cellular response to ionizing radiation

Rashi-Elkeles, S., Warnatz, H. J., Elkon, R., Kupershtein, A., Chobod, Y., Paz, A., et al. (2014). Parallel profiling of the transcriptome, cistrome, and epigenome in the cellular response to ionizing radiation. Science Signaling, 7(325): rs3. doi:10.1126/scisignal.2005032.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-0025-B5E3-9 Version Permalink: http://hdl.handle.net/11858/00-001M-0000-0025-B5E4-7
Genre: Journal Article

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© 2014 American Association for the Advancement of Science
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 Creators:
Rashi-Elkeles, S., Author
Warnatz, H. J.1, Author              
Elkon, R., Author
Kupershtein, A., Author
Chobod, Y., Author
Paz, A., Author
Amstislavskiy, V.1, Author              
Sultan, M.1, Author              
Safer, H., Author
Nietfeld, W.2, Author              
Lehrach, H.2, Author              
Shamir, R., Author
Yaspo, M. L.3, Author              
Shiloh, Y., Author
Affiliations:
1Human Chromosome 21 (Marie-Laure Yaspo), Dept. of Vertebrate Genomics (Head: Hans Lehrach), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1479652              
2Dept. of Vertebrate Genomics (Head: Hans Lehrach), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1433550              
3Gene Regulation and Systems Biology of Cancer (Marie-Laure Yaspo), Independent Junior Research Groups (OWL), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_2117287              

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Free keywords: Ataxia Telangiectasia Mutated Proteins/genetics/metabolism Cell Line Epigenesis, Genetic/*radiation effects Gene Expression Profiling/methods Gene Regulatory Networks/*radiation effects Humans *Radiation, Ionizing Transcriptome/*radiation effects Tumor Suppressor Protein p53/genetics/metabolism
 Abstract: The DNA damage response (DDR) is a vast signaling network that is robustly activated by DNA double-strand breaks, the critical lesion induced by ionizing radiation (IR). Although much of this response operates at the protein level, a critical component of the network sustains many DDR branches by modulating the cellular transcriptome. Using deep sequencing, we delineated three layers in the transcriptional response to IR in human breast cancer cells: changes in the expression of genes encoding proteins or long noncoding RNAs, alterations in genomic binding by key transcription factors, and dynamics of epigenetic markers of active promoters and enhancers. We identified protein-coding and previously unidentified noncoding genes that were responsive to IR, and demonstrated that IR-induced transcriptional dynamics was mediated largely by the transcription factors p53 and nuclear factor kappaB (NF-kappaB) and was primarily dependent on the kinase ataxia-telangiectasia mutated (ATM). The resultant data set provides a rich resource for understanding a basic, underlying component of a critical cellular stress response.

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Language(s): eng - English
 Dates: 2014-05-13
 Publication Status: Published online
 Pages: -
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 Table of Contents: -
 Rev. Type: Peer
 Identifiers: DOI: 10.1126/scisignal.2005032
ISSN: 1937-9145 (Electronic)
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Title: Science Signaling
Source Genre: Journal
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Publ. Info: American Association for the Advancement of Science
Pages: - Volume / Issue: 7 (325) Sequence Number: rs3 Start / End Page: - Identifier: -