A Genome-wide Breast Cancer Scan in African Americans
Annual rept. 1 Jun 2008-31 May 2009
UNIVERSITY OF SOUTHERN CALIFORNIA LOS ANGELES
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This genome-wide association of breast cancer includes over 3,000 African American women with invasive disease and over 3,000 age-matched African American controls from many existing case-control studies of breast cancer in the U.S. In the first year of this project all DNA samples from these studies were sent to Dr. Haimans laboratory at the University of Southern California, quantitated and arrayed for genotyping. We have also assembled the covariate file that contains established breast cancer risk factor data collected from these studies, and the data have been standardized for the analysis. As of April 1, 2009, we have genome-wide scanned 2,200 cases and 2,200 controls from a number of the participating studies using the Illumina 1M Beadchip. We have assessed the blinded quality control replicates and overall call rates by SNP and sample and the data appear to be of very high quality. We have conducted a very preliminary statistical analysis of the data and there are a number of promising signals including what we believe is a novel risk locus for breast cancer that may be of particular importance for estrogen receptor negative breast cancer. The analysis will continue as additional samplesstudies are scanned over the next year.
- Medicine and Medical Research