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

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.

SUBMITTER: Hulf T

PROVIDER: S-EPMC3037319 | biostudies-other | 2011

REPOSITORIES: biostudies-other

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

Hulf Toby T Sibbritt Tennille T Wiklund Erik D ED Bert Saul S Strbenac Dario D Statham Aaron L AL Robinson Mark D MD Clark Susan J SJ

BMC genomics 20110121

<h4>Background</h4>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.<h4>Results</h4>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- ...[more]

PMID: 21255435

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