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BMC Genomics. 2011 Jan 21;12:54. doi: 10.1186/1471-2164-12-54.

Discovery pipeline for epigenetically deregulated miRNAs in cancer: integration of primary miRNA transcription.

Author information

1
Epigenetics Laboratory, Cancer Research Program, Garvan Institute of Medical Research, 384 Victoria Street, Darlinghurst, NSW 2010, Australia.

Abstract

BACKGROUND:

Cancer is commonly associated with widespread disruption of DNA methylation, chromatin modification and miRNA expression. In this study, we established a robust discovery pipeline to identify epigenetically deregulated miRNAs in cancer.

RESULTS:

Using an integrative approach that combines primary transcription, genome-wide DNA methylation and H3K9Ac marks with microRNA (miRNA) expression, we identified miRNA genes that were epigenetically modified in cancer. We find miR-205, miR-21, and miR-196b to be epigenetically repressed, and miR-615 epigenetically activated in prostate cancer cells.

CONCLUSIONS:

We show that detecting changes in primary miRNA transcription levels is a valuable method for detection of local epigenetic modifications that are associated with changes in mature miRNA expression.

PMID:
21255435
PMCID:
PMC3037319
DOI:
10.1186/1471-2164-12-54
[Indexed for MEDLINE]
Free PMC Article

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