An integrated expression atlas of miRNAs and their promoters in human and mouse

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title = "An integrated expression atlas of miRNAs and their promoters in human and mouse",
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.",
author = "{De Rie}, Derek and Imad Abugessaisa and Tanvir Alam and Erik Arner and Peter Arner and Haitham Ashoor and Gaby {\AA}str{\"o}m and Magda Babina and Nicolas Bertin and Burroughs, {A. Maxwell} and Carlisle, {Ailsa J.} and Daub, {Carsten O.} and Michael Detmar and Ruslan Deviatiiarov and Alexandre Fort and Claudia Gebhard and Daniel Goldowitz and Sven Guhl and Ha, {Thomas J.} and Jayson Harshbarger and Akira Hasegawa and Kosuke Hashimoto and Meenhard Herlyn and Peter Heutink and Hitchens, {Kelly J.} and Hon, {Chung Chau} and Edward Huang and Yuri Ishizu and Chieko Kai and Takeya Kasukawa and Peter Klinken and Timo Lassmann and Lecellier, {Charles Henri} and Weonju Lee and Marina Lizio and Vsevolod Makeev and Anthony Mathelier and Medvedeva, {Yulia A.} and Niklas Mejhert and Mungall, {Christopher J.} and Shohei Noma and Mitsuhiro Ohshima and Mariko Okada-Hatakeyama and Helena Persson and Patrizia Rizzu and Filip Roudnicky and P{\aa}l S{\ae}trom and Hiroki Sato and Jessica Severin and Shin, {Jay W.} and Swoboda, {Rolf K.} and Hiroshi Tarui and Hiroo Toyoda and Kristoffer Vitting-Seerup and Louise Winteringham and Yoko Yamaguchi and Kayoko Yasuzawa and Misako Yoneda and Noriko Yumoto and Susan Zabierowski and Zhang, {Peter G.} and Wells, {Christine A.} and Summers, {Kim M.} and Hideya Kawaji and Albin Sandelin and Michael Rehli and Yoshihide Hayashizaki and Piero Carninci and Forrest, {Alistair R.R.} and {De Hoon}, {Michiel J.L.}",
year = "2017",
month = "9",
day = "1",
doi = "10.1038/nbt.3947",
language = "English",
volume = "35",
pages = "872--878",
journal = "Nature Biotechnology",
issn = "1546-1696",
publisher = "Nature Publishing Group",
number = "9",