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  A statistical model for epigenetic control of miRNAs

Barros de Andrade e Sousa, L., & Marsico, A. (2016). A statistical model for epigenetic control of miRNAs. PeerJ, 4: 4:e2423v1. doi:10.7287/peerj.preprints.2423v1.

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e Sousa.pdf (Preprint), 662KB
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© 2016 Barros de Andrade e Sousa et al

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 Creators:
Barros de Andrade e Sousa, Lisa 1, Author
Marsico, Annalisa1, 2, Author              
Affiliations:
1RNA Bioinformatics (Annalisa Marsico), Independent Junior Research Groups (OWL), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_2117285              
2Institut für Informatik, Freie Universität Berlin, Berlin, Germany, ou_persistent22              

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Free keywords: miRNA, epigenetic regulation, regularized logistic regression, DNA methylation
 Abstract: microRNAs are small, non-coding RNAs involved in post-transcriptional gene regulation. Since the dysregulation of only a few miRNAs can affect many biological pathways, miRNAs are thought to play a key role in cancer development and can be used as biomarkers for cancer diagnosis and prognosis. In order to understand how miRNA dysregulation leads to a cancer phenotype it is important to determine the basic regulatory mechanisms that drive miRNA expression. Although much is known about miRNA-mediated post-transcriptional regulation, little is known about the epigenetic control of miRNAs. Here, we performed cell-line specific miRNA promoter predictions and built a classification model for expressed and non-expressed miRNAs based on several epigenetic features, e.g. histone marks and DNA methylation at both, miRNA promoters and around miRNA hairpins. We were able to classify intragenic and intergenic miRNAs with an accuracy of 79% and 85%, respectively, and identified the most important features for classification via feature selection. Surprisingly, we found that DNA methylation seems to have a dual role in regulating miRNA expression at transcriptional level: at promoters, high levels of DNA methylation correlate with transcriptional repression, while around miRNA hairpins high levels of DNA methylation have a positive impact on the expression level of the mature miRNA.

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Language(s): eng - English
 Dates: 2016-09-062016-09-06
 Publication Status: Published online
 Pages: -
 Publishing info: -
 Table of Contents: -
 Rev. Type: -
 Identifiers: DOI: 10.7287/peerj.preprints.2423v1
 Degree: -

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Title: PeerJ
Source Genre: Journal
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Publ. Info: San Francisco, USA : PeerJ Inc.
Pages: - Volume / Issue: 4 Sequence Number: 4:e2423v1 Start / End Page: - Identifier: ISSN: 2167-8359
CoNE: https://pure.mpg.de/cone/journals/resource/2167-8359