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| Status |
Public on Mar 01, 2015 |
| Title |
High-resolution genome-wide copy number analysis of low grade serous ovarian tumours |
| Organism |
Homo sapiens |
| Experiment type |
Genome variation profiling by SNP array
|
| Summary |
Integration of genomic copy number analysis (Affymetrix SNP6.0 arrays) and oncogenic RAS/RAF mutation status with clinical features and tumour progression.
This study found that loss of the 9p and the CDKN2A locus with the most significantly enriched copy number aberration distinguishing serous border tumors from low grade serous carcinomas, suggesting this is a key step to tumor progression.
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| Overall design |
Epithelial tissue from 57 serous borderline tumors (SBTs), 19 low grade serous carcinomas (LGSC)(data for 4 of the carcinomas have previously been submitted to GEO - Series GSE19539) and 355 high grade serous carinomas (HGSC)(TCGA, 2011; GSE19539; and 8 new) were analysed for copy number aberrations using Affymetrix SNP6.0 arrays and normalised SNP6.0 data. Stromal tissue from 38 SBT and 1 HGSC were analysed for copy number aberrations using Affymetrix SNP6.0 arrays. Matching lymphocyte DNA was availabe for 54 SBT, 3 LGSC and 1 HGSC. Sanger sequencing of KRAS, BRAF, NRAS, HRAS, ERBB2 and TP53 mutational hotspots was performed on the epithelial and stromal DNA. This information was then correlated with clinical features of the tumors.
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| Contributor(s) |
Campbell IG, Hunter SM, Gorringe KL |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Jun 17, 2014 |
| Last update date |
Nov 27, 2018 |
| Contact name |
Sally Hunter |
| E-mail(s) |
Sally.Hunter@petermac.org
|
| Organization name |
Peter MacCallum Cancer Centre
|
| Department |
Research
|
| Lab |
Cancer Genetics
|
| Street address |
7 St Andrew's Pl
|
| City |
Melbourne |
| State/province |
VIC |
| ZIP/Postal code |
3002 |
| Country |
Australia |
| |
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| Platforms (1) |
| GPL6801 |
[GenomeWideSNP_6] Affymetrix Genome-Wide Human SNP 6.0 Array |
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| Samples (179)
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| Relations |
| Affiliated with |
GSM492513 |
| Affiliated with |
GSM492522 |
| Affiliated with |
GSM492527 |
| Affiliated with |
GSM492559 |
| Affiliated with |
GSM492495 |
| Affiliated with |
GSM492496 |
| Affiliated with |
GSM492503 |
| Affiliated with |
GSM492507 |
| Affiliated with |
GSM492510 |
| Affiliated with |
GSM492511 |
| Affiliated with |
GSM492514 |
| Affiliated with |
GSM492516 |
| Affiliated with |
GSM492517 |
| Affiliated with |
GSM492523 |
| Affiliated with |
GSM492524 |
| Affiliated with |
GSM492530 |
| Affiliated with |
GSM492533 |
| Affiliated with |
GSM492534 |
| Affiliated with |
GSM492536 |
| Affiliated with |
GSM492538 |
| Affiliated with |
GSM492539 |
| Affiliated with |
GSM492543 |
| Affiliated with |
GSM492547 |
| Affiliated with |
GSM492549 |
| Affiliated with |
GSM492552 |
| Affiliated with |
GSM492554 |
| Affiliated with |
GSM492555 |
| Affiliated with |
GSM492557 |
| Affiliated with |
GSM492558 |
| Affiliated with |
GSM492560 |
| Affiliated with |
GSM492561 |
| Affiliated with |
GSM492562 |
| Affiliated with |
GSM492563 |
| Affiliated with |
GSM492564 |
| Affiliated with |
GSM492566 |
| BioProject |
PRJNA254778 |
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