Dynamics of microRNA expression during mouse prenatal development
- Creators
- Rahmanian, Sorena
- Murad, Rabi
- Breschi, Alessandra
- Zeng, Weihua
- Mackiewicz, Mark
- Williams, Brian
- Davis, Carrie A.
- Roberts, Brian
- Meadows, Sarah
- Moore, Dianne
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Trout, Diane
- Zaleski, Chris
- Dobin, Alex
- Sei, Lei-Hoon
- Drenkow, Jorg
- Scavelli, Alex
- Gingeras, Thomas R.
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Wold, Barbara J.
- Myers, Richard M.
- Guigó, Roderic
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Mortazavi, Ali
Abstract
MicroRNAs (miRNAs) play a critical role as posttranscriptional regulators of gene expression. The ENCODE Project profiled the expression of miRNAs in an extensive set of organs during a time-course of mouse embryonic development and captured the expression dynamics of 785 miRNAs. We found distinct organ-specific and developmental stage–specific miRNA expression clusters, with an overall pattern of increasing organ-specific expression as embryonic development proceeds. Comparative analysis of conserved miRNAs in mouse and human revealed stronger clustering of expression patterns by organ type rather than by species. An analysis of messenger RNA expression clusters compared with miRNA expression clusters identifies the potential role of specific miRNA expression clusters in suppressing the expression of mRNAs specific to other developmental programs in the organ in which these miRNAs are expressed during embryonic development. Our results provide the most comprehensive time-course of miRNA expression as part of an integrated ENCODE reference data set for mouse embryonic development.
Additional Information
© 2019 Rahmanian et al. Freely available online through the Genome Research Open Access option. This article, published in Genome Research, is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/. Received January 30, 2019; Accepted August 29, 2019; published in Advance October 23, 2019. Data access: All the miRNA-seq, short RNA-seq, and NanoString data from this study can be accessed through the ENCODE data portal (https://www.encodeproject.org) under the accession numbers listed in Supplemental Table S1. This work was supported by the NIH, National Human Genome Research Institute under grants U54 HG006998 and UM1 HG009443.Attached Files
Published - Genome_Res.-2019-Rahmanian-1900-9.pdf
Submitted - 492918.full.pdf
Supplemental Material - Supplemental_Material_v42.pdf
Supplemental Material - Supplemental_Tables.zip
Files
Additional details
- PMCID
- PMC6836743
- Eprint ID
- 91702
- Resolver ID
- CaltechAUTHORS:20181212-091659236
- NIH
- U54 HG006998
- NIH
- UM1 HG009443
- National Human Genome Research Institute
- Created
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2018-12-12Created from EPrint's datestamp field
- Updated
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2022-02-16Created from EPrint's last_modified field