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Cell type specific signatures of microRNAs on target mRNA expression

Item Type:Article
Title:Cell type specific signatures of microRNAs on target mRNA expression
Creators Name:Sood, P. and Krek, A. and Zavolan, M. and Macino, G. and Rajewsky, N.
Abstract:Although it is known that the human genome contains hundreds of microRNA (miRNA) genes and that each miRNA can regulate a large number of mRNA targets, the overall effect of miRNAs on mRNA tissue profiles has not been systematically elucidated. Here, we show that predicted human mRNA targets of several highly tissue-specific miRNAs are typically expressed in the same tissue as the miRNA but at significantly lower levels than in tissues where the miRNA is not present. Conversely, highly expressed genes are often enriched in mRNAs that do not have the recognition motifs for the miRNAs expressed in these tissues. Together, our data support the hypothesis that miRNA expression broadly contributes to tissue specificity of mRNA expression in many human tissues. Based on these insights, we apply a computational tool to directly correlate 3' UTR motifs with changes in mRNA levels upon miRNA overexpression or knockdown. We show that this tool can identify functionally important 3' UTR motifs without cross-species comparison.
Keywords:3' Untranslated Regions, Computational Biology, Gene Expression Profiling, Gene Expression Regulation, MicroRNAs, Oligonucleotide Array Sequence Analysis, Messenger RNA, Tissue Distribution, Animals
Source:Proceedings of the National Academy of Sciences of the United States of America
Publisher:National Academy of Sciences
Page Range:2746-2751
Date:21 February 2006
Official Publication:https://doi.org/10.1073/pnas.0511045103
PubMed:View item in PubMed

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