Hah, N., Danko, C. G., Core, L., Waterfall, J. J., Siepel, A., Lis, J. T., Kraus, W. L. (May 2011) A rapid, extensive, and transient transcriptional response to estrogen signaling in breast cancer cells. Cell, 145 (4). pp. 622-34. ISSN 0092-8674
Abstract
We report the immediate effects of estrogen signaling on the transcriptome of breast cancer cells using global run-on and sequencing (GRO-seq). The data were analyzed using a new bioinformatic approach that allowed us to identify transcripts directly from the GRO-seq data. We found that estrogen signaling directly regulates a strikingly large fraction of the transcriptome in a rapid, robust, and unexpectedly transient manner. In addition to protein-coding genes, estrogen regulates the distribution and activity of all three RNA polymerases and virtually every class of noncoding RNA that has been described to date. We also identified a large number of previously undetected estrogen-regulated intergenic transcripts, many of which are found proximal to estrogen receptor binding sites. Collectively, our results provide the most comprehensive measurement of the primary and immediate estrogen effects to date and a resource for understanding rapid signal-dependent transcription in other systems.
| Item Type: | Paper |
|---|---|
| Uncontrolled Keywords: | Breast Neoplasms/*genetics Cell Line, Tumor Computational Biology/*methods Estrogen Receptor alpha/metabolism Estrogens/*metabolism *Gene Expression Profiling *Gene Expression Regulation, Neoplastic Genetic Techniques Humans RNA, Untranslated/genetics Sequence Analysis, DNA Signal Transduction |
| Subjects: | bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > transcription diseases & disorders > cancer > cancer types > breast cancer bioinformatics > computational biology bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > genes, structure and function > gene expression |
| CSHL Authors: | |
| Communities: | CSHL labs > Siepel lab |
| Depositing User: | Matt Covey |
| Date: | 13 May 2011 |
| Date Deposited: | 14 Jan 2015 17:33 |
| Last Modified: | 14 Jan 2015 17:33 |
| PMCID: | PMC3099127 |
| Related URLs: | |
| URI: | https://repository.cshl.edu/id/eprint/31066 |
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