An atlas of active enhancers across human cell types and tissues

Andersson, Robin, Gebhard, Claudia, Miguel-Escalada, Irene, Hoof, Ilka, Bornholdt, Jette, Boyd, Mette, Chen, Yun, Zhao, Xiaobei, Schmidl, Christian, Suzuki, Takahiro, Ntini, Evgenia, Arner, Erik, Valen, Eivind, Li, Kang, Schwarzfischer, Lucia, Glatz, Dagmar, Raithel, Johanna, Lilje, Berit, Rapin, Nicolas, Bagger, Frederik Otzen, Jørgensen, Mette, Andersen, Peter Refsing, Bertin, Nicolas, Rackham, Owen, Burroughs, A. Maxwell, Baillie, J. Kenneth, Ishizu, Yuri, Shimizu, Yuri, Furuhata, Erina, Maeda, Shiori, Negishi, Yutaka, Mungall, Christopher J., Meehan, Terrence F., Lassmann, Timo, Itoh, Masayoshi, Kawaji, Hideya, Kondo, Naoto, Kawai, Jun, Lennartsson, Andreas, Daub, Carsten O., Heutink, Peter, Hume, David A., Jensen, Torben Heick, Suzuki, Harukazu, Hayashizaki, Yoshihide, Müller, Ferenc, The FANTOM consortium, Forrest, Alistair R. R., Carninci, Piero, Rehli, Michael and Sandelin, Albin (2014) An atlas of active enhancers across human cell types and tissues. Nature, 507 7493: 455-461. doi:10.1038/nature12787

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Author Andersson, Robin
Gebhard, Claudia
Miguel-Escalada, Irene
Hoof, Ilka
Bornholdt, Jette
Boyd, Mette
Chen, Yun
Zhao, Xiaobei
Schmidl, Christian
Suzuki, Takahiro
Ntini, Evgenia
Arner, Erik
Valen, Eivind
Li, Kang
Schwarzfischer, Lucia
Glatz, Dagmar
Raithel, Johanna
Lilje, Berit
Rapin, Nicolas
Bagger, Frederik Otzen
Jørgensen, Mette
Andersen, Peter Refsing
Bertin, Nicolas
Rackham, Owen
Burroughs, A. Maxwell
Baillie, J. Kenneth
Ishizu, Yuri
Shimizu, Yuri
Furuhata, Erina
Maeda, Shiori
Negishi, Yutaka
Mungall, Christopher J.
Meehan, Terrence F.
Lassmann, Timo
Itoh, Masayoshi
Kawaji, Hideya
Kondo, Naoto
Kawai, Jun
Lennartsson, Andreas
Daub, Carsten O.
Heutink, Peter
Hume, David A.
Jensen, Torben Heick
Suzuki, Harukazu
Hayashizaki, Yoshihide
Müller, Ferenc
The FANTOM consortium
Forrest, Alistair R. R.
Carninci, Piero
Rehli, Michael
Sandelin, Albin
Title An atlas of active enhancers across human cell types and tissues
Journal name Nature   Check publisher's open access policy
ISSN 0028-0836
Publication date 2014-03-27
Year available 2014
Sub-type Article (original research)
DOI 10.1038/nature12787
Open Access Status Not yet assessed
Volume 507
Issue 7493
Start page 455
End page 461
Total pages 7
Place of publication London, United Kingdom
Publisher Nature Publishing Group
Language eng
Formatted abstract
Enhancers control the correct temporal and cell-type-specific activation of gene expression in multicellular eukaryotes. Knowing their properties, regulatory activity and targets is crucial to understand the regulation of differentiation and homeostasis. Here we use the FANTOM5 panel of samples, covering the majority of human tissues and cell types, to produce an atlas of active, in vivo-transcribed enhancers. We show that enhancers share properties with CpG-poor messenger RNA promoters but produce bidirectional, exosome-sensitive, relatively short unspliced RNAs, the generation of which is strongly related to enhancer activity. The atlas is used to compare regulatory programs between different cells at unprecedented depth, to identify disease-associated regulatory single nucleotide polymorphisms, and to classify cell-type-specific and ubiquitous enhancers. We further explore the utility of enhancer redundancy, which explains gene expression strength rather than expression patterns. The online FANTOM5 enhancer atlas represents a unique resource for studies on cell-type-specific enhancers and gene regulation.
Keyword Multidisciplinary Sciences
Science & Technology - Other Topics
Q-Index Code C1
Q-Index Status Confirmed Code
Grant ID 204135
Institutional Status Non-UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: Non HERDC
Out of Circulation
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Citation counts: TR Web of Science Citation Count  Cited 522 times in Thomson Reuters Web of Science Article | Citations
Scopus Citation Count Cited 527 times in Scopus Article | Citations
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Created: Fri, 27 Jun 2014, 00:58:57 EST by Cathy Fouhy on behalf of Aust Institute for Bioengineering & Nanotechnology