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| Status |
Public on Mar 12, 2009 |
| Title |
Repertoire of miRNAs in epithelial ovarian cancer determined by next generation sequencing of small RNA cDNA libraries |
| Organism |
Homo sapiens |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
Background: MicroRNAs (miRNAs) are small regulatory RNAs that are implicated in cancer pathogenesis and have recently shown promise as blood-based biomarkers for cancer detection. Epithelial ovarian cancer is a deadly disease for which improved outcomes could be achieved by successful early detection and enhanced understanding of molecular pathogenesis that leads to improved therapies. A critical step toward these goals is to establish a comprehensive view of miRNAs expressed in epithelial ovarian cancer tissues as well as in normal ovarian surface epithelial cells.
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| Overall design |
Methodology: We used massively parallel pyrosequencing (i.e., “454 sequencing”) to discover and characterize novel and known miRNAs expressed in primary cultures of normal human ovarian surface epithelium (HOSE) and in tissue from three of the most common histotypes of ovarian cancer. Deep sequencing of small RNA cDNA libraries derived from normal HOSE and ovarian cancer samples yielded a total of 738,710 high-quality sequence reads, generating comprehensive digital profiles of miRNA expression. Expression profiles for 498 previously annotated miRNAs were delineated and we discovered six novel miRNAs and 39 candidate miRNAs. A set of 124 miRNAs was differentially expressed in normal versus cancer samples and 38 miRNAs were differentially expressed across histologic subtypes of ovarian cancer. Taqman qRT-PCR performed on a subset of miRNAs confirmed results of the sequencing-based study.
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| Contributor(s) |
Wyman SK, Tewari M, Parkin RK, Mitchell PS, Fritz BR, O'Briant K, Godwin AK, Urban N, Drescher CW, Knudsen BS |
| Citation(s) |
19390579 |
| |
| Submission date |
Mar 11, 2009 |
| Last update date |
Mar 21, 2012 |
| Contact name |
Muneesh Tewari |
| E-mail(s) |
mtewari@fhcrc.org
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| Organization name |
Fred Hutchinson Cancer Research Center
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| Department |
Human Biology
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| Lab |
Tewari
|
| Street address |
1100 Fairview Ave, N
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| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98109 |
| Country |
USA |
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| Platforms (1) |
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| Samples (4)
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| GSM379265 |
Small RNA from endometrioid ovarian cancer tissue |
| GSM379266 |
Small RNA from primary cultures of normal human ovarian surface epithelium (HOSE) |
| GSM379267 |
Small RNA from clear cell ovarian cancer tissue |
| GSM379268 |
Small RNA from serous ovarian cancer tissue |
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| Relations |
| BioProject |
PRJNA116407 |
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