Journal article
Copy number analysis identifies novel interactions between genomic loci in ovarian cancer
KL Gorringe, J George, MS Anglesio, M Ramakrishna, D Etemadmoghadam, P Cowin, A Sridhar, LH Williams, SE Boyle, N Yanaihara, A Okamoto, M Urashima, GK Smyth, IG Campbell, DDL Bowtell
Plos One | Published : 2010
Abstract
Ovarian cancer is a heterogeneous disease displaying complex genomic alterations, and consequently, it has been difficult to determine the most relevant copy number alterations with the scale of studies to date. We obtained genome-wide copy number alteration (CNA) data from four different SNP array platforms, with a final data set of 398 ovarian tumours, mostly of the serous histological subtype. Frequent CNA aberrations targeted many thousands of genes. However, high-level amplicons and homozygous deletions enabled filtering of this list to the most relevant. The large data set enabled refinement of minimal regions and identification of rare amplicons such as at 1p34 and 20q11. We performed..
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Awarded by United States Army Medical Research and Materiel Command
Funding Acknowledgements
This work was supported by the National Health and Medical Research Council of Australia; the Victorian Breast Cancer Research Consortium (VBCRC), Australia; and the Department of Defense (DOD), United States of America. JG is supported by an Australian Postgraduate Award. MR is supported by a Cancer Council of Victoria Postgraduate Scholarship. This research was also supported by a Victorian Life Sciences Computation Initiative (VLSCI) grant on its Peak Computing Facility at the University of Melbourne and at Victorian Partnership for Advanced Computing (VPAC). Australian Ovarian Cancer Study (AOCS) was supported by the United States Army Medical Research and Materiel Command under DAMD17- 01- 1- 0729, The Cancer Council Victoria, Queensland Cancer Fund, The Cancer Council New South Wales, The Cancer Council South Australia, The Cancer Foundation of Western Australia, The Cancer Council Tasmania, and the National Health and Medical Research Council of Australia (NHMRC). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.