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

de Rie, D; Abugessaisa, I; Alam, T; Arner, E; Arner, P; Ashoor, H; Astrom, G; Babina, M; Bertin, N; Burroughs, AM; Carlisle, AJ; Daub, CO; Detmar, M; Deviatiiarov, R; Fort, A; Gebhard, C; Goldowitz, D; Guhl, S; Ha, TJ; Harshbarger, J; Hasegawa, A; Hashimoto, K; Herlyn, M; Heutink, P; Hitchens, KJ; Hon, CC; Huang, E; Ishizu, Y; Kai, C; Kasukawa, T; Klinken, P; Lassmann, T; Lecellier, CH; Lee, W; Lizio, M; Makeev, V; Mathelier, A; Medvedeva, YA; Mejhert, N; Mungall, CJ; Noma, S; Ohshima, M; Okada-Hatakeyama, M; Persson, H; Rizzu, P; Roudnicky, F; Saetrom, P; Sato, H; Severin, J; Shin, JW; Swoboda, RK; Tarui, H; Toyoda, H; Vitting-Seerup, K; Winteringham, L; Yamaguchi, Y; Yasuzawa, K; Yoneda, M; Yumoto, N; Zabierowski, S; Zhang, PG; Wells, CA; Summers, KM; Kawaji, H; Sandelin, A; Rehli, M; Fantom Consortium; Hayashizaki, Y; Carninci, P; Forrest, ARR; de Hoon, MJL

Author(s): de Rie, D; Abugessaisa, I; Alam, T; Arner, E; Arner, P; Ashoor, H; Astrom, G; Babina, M; Bertin, N; Burroughs, AM; Carlisle, AJ; Daub, CO; Detmar, M; Deviatiiarov, R; Fort, A; Gebhard, C; Goldowitz, D; Guhl, S; Ha, TJ; Harshbarger, J; Hasegawa, A; Hashimoto, K; Herlyn, M; Heutink, P; Hitchens, KJ; Hon, CC; Huang, E; Ishizu, Y; Kai, C; Kasukawa, T; Klinken, P; Lassmann, T; Lecellier, CH; Lee, W; Lizio, M; Makeev, V; Mathelier, A; Medvedeva, YA; Mejhert, N; Mungall, CJ; Noma, S; Ohshima, M; Okada-Hatakeyama, M; Persson, H; Rizzu, P; Roudnicky, F; Saetrom, P; Sato, H; Severin, J; Shin, JW; Swoboda, RK; Tarui, H; Toyoda, H; Vitting-Seerup, K; Winteringham, L; Yamaguchi, Y; Yasuzawa, K; Yoneda, M; Yumoto, N; Zabierowski, S; Zhang, PG; Wells, CA; Summers, KM; Kawaji, H; Sandelin, A; Rehli, M; Fantom Consortium; Hayashizaki, Y; Carninci, P; Forrest, ARR; de Hoon, MJL;
Details: Publication Year 2017-09,Volume 35,Issue #9,Page 872-878
Journal Title: Nature Biotechnology
Publication Type: Journal Article
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.
Publisher: Springer Nature
Research Division(s): Molecular Medicine
PubMed ID: 28829439
Publisher's Version: https://doi.org/10.1038/nbt.3947
Terms of Use/Rights Notice: Refer to copyright notice on published article.

Creation Date: 2017-09-06 11:18:15

Last Modified: 2017-09-29 12:13:05