Transcriptomics

Dataset Information

301

HITS-CLIP reveals key regulators of nuclear receptor signaling in breast cancer.


ABSTRACT: We used a genome-wide approach (High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation, or HITS-CLIP) to define direct miRNA-mRNA interactions in three breast cancer subtypes (estrogen receptor positive, Her2 amplified and triple negative). Focusing on steroid receptor signaling, we identified two novel regulators of the ER pathway (miR-9-5p and miR-193a/b-3p), which together target multiple genes involved in ER signaling. Moreover, this approach enabled the definition of miR-9-5p as a global regulator of steroid receptor signaling in breast cancer. Finally, we show that miRNA targets and networks defined by our analysis are predictive of patient outcomes and provide global insight into miRNA regulation in breast cancer. Argonaute HITS-CLIP on three representative breast cancer cell lines (each in triplicate).

ORGANISM(S): Homo sapiens  

SUBMITTER: Tomomi M Yamamoto   Kale Flory  Jay R Hesselberth  Peter Kabos  Joesph Brown  Enos Kline  Austin E Gillen  Manoj M Pillai 

PROVIDER: E-GEOD-57855 | ArrayExpress | 2014-08-04

SECONDARY ACCESSION(S): GSE57855SRP042140PRJNA248264

REPOSITORIES: GEO, ArrayExpress, ENA

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Publications

HITS-CLIP reveals key regulators of nuclear receptor signaling in breast cancer.

Pillai Manoj M MM   Gillen Austin E AE   Yamamoto Tomomi M TM   Kline Enos E   Brown Joseph J   Flory Kale K   Hesselberth Jay R JR   Kabos Peter P  

Breast cancer research and treatment 20140607 1


miRNAs regulate the expression of genes in both normal physiology and disease. While miRNAs have been demonstrated to play a pivotal role in aspects of cancer biology, these reports have generally focused on the regulation of single genes. Such single-gene approaches have significant limitations, relying on miRNA expression levels and heuristic predictions of mRNA-binding sites. This results in only circumstantial evidence of miRNA-target interaction and typically leads to large numbers of false  ...[more]

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