| Literature DB >> 28829439 |
Derek de Rie1,2, Imad Abugessaisa1, Tanvir Alam3, Erik Arner1,4, Peter Arner5, Haitham Ashoor3, Gaby Åström5, Magda Babina6, Nicolas Bertin1,4,7, A Maxwell Burroughs1,4,8, Ailsa J Carlisle9, Carsten O Daub1,4, Michael Detmar10, Ruslan Deviatiiarov1,11, Alexandre Fort1,4, Claudia Gebhard12,13, Daniel Goldowitz14, Sven Guhl6, Thomas J Ha14, Jayson Harshbarger1,4, Akira Hasegawa1,4, Kosuke Hashimoto1,4, Meenhard Herlyn15, Peter Heutink16, Kelly J Hitchens17, Chung Chau Hon1, Edward Huang18,19, Yuri Ishizu1,4, Chieko Kai20, Takeya Kasukawa1, Peter Klinken21, Timo Lassmann1,4,22, Charles-Henri Lecellier14,23, Weonju Lee24, Marina Lizio1,4, Vsevolod Makeev25,26,27, Anthony Mathelier14, Yulia A Medvedeva25,28,29, Niklas Mejhert5, Christopher J Mungall30, Shohei Noma1,4, Mitsuhiro Ohshima31, Mariko Okada-Hatakeyama32,33, Helena Persson34, Patrizia Rizzu16, Filip Roudnicky10, Pål Sætrom35, Hiroki Sato20, Jessica Severin1,4, Jay W Shin1,4, Rolf K Swoboda15, Hiroshi Tarui1,4, Hiroo Toyoda36, Kristoffer Vitting-Seerup37, Louise Winteringham21, Yoko Yamaguchi38, Kayoko Yasuzawa1, Misako Yoneda20, Noriko Yumoto33, Susan Zabierowski39, Peter G Zhang14, Christine A Wells18,19, Kim M Summers9,40, Hideya Kawaji1,4,41, Albin Sandelin37, Michael Rehli12,13, Yoshihide Hayashizaki4,41, Piero Carninci1,4, Alistair R R Forrest1,4,21, Michiel J L de Hoon1,4.
Abstract
MicroRNAs (miRNAs) are short non-coding RNAs with key roles in cellular regulation. As part of the fifth edition of the Functional Annotation of Mammalian Genome (FANTOM5) project, we created an integrated expression atlas of miRNAs and their promoters by deep-sequencing 492 short RNA (sRNA) libraries, with matching Cap Analysis Gene Expression (CAGE) data, from 396 human and 47 mouse RNA samples. Promoters were identified for 1,357 human and 804 mouse miRNAs and showed strong sequence conservation between species. We also found that primary and mature miRNA expression levels were correlated, allowing us to use the primary miRNA measurements as a proxy for mature miRNA levels in a total of 1,829 human and 1,029 mouse CAGE libraries. We thus provide a broad atlas of miRNA expression and promoters in primary mammalian cells, establishing a foundation for detailed analysis of miRNA expression patterns and transcriptional control regions.Entities:
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Year: 2017 PMID： 28829439 PMCID： PMC5767576 DOI： 10.1038/nbt.3947
Source DB: PubMed Journal: Nat Biotechnol ISSN： 1087-0156 Impact factor: 54.908