Patterns of Somatically Acquired Amplifications and Deletions in Apparently Normal Tissues of Ovarian Cancer Patients Leila Aghili, Jasmine Foo, James.

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Patterns of Somatically Acquired Amplifications and Deletions in Apparently Normal Tissues of Ovarian Cancer Patients Leila Aghili, Jasmine Foo, James DeGregori, Subhajyoti De Cell Reports Volume 7, Issue 4, Pages 1310-1319 (May 2014) DOI: 10.1016/j.celrep.2014.03.071 Copyright © 2014 The Authors Terms and Conditions

Cell Reports 2014 7, 1310-1319DOI: (10.1016/j.celrep.2014.03.071) Copyright © 2014 The Authors Terms and Conditions

Figure 1 Summary of the Somatic Genomic Alterations in the Normal Tissues of the Ovarian Cancer Patients (A) The pipeline for detecting somatic amplifications and deletions in apparently normal peripheral blood and ovarian cancer tissue of the TCGA ovarian cancer patients. (B) Summary statistics of somatic amplifications and deletions in peripheral blood and ovarian cancer tissue in the cohort. The BRCA mutation carriers are shown categorically. (C–E) The number of somatic genomic alterations (amplifications and deletions) per (C) peripheral blood sample, grouped according to the age of the individuals; (D) peripheral blood sample, grouped according to BRCA mutation status; and (E) ovarian tissue sample, grouped according to BRCA mutation status. The horizontal line shows the median value across all the samples in the respective panels. Cell Reports 2014 7, 1310-1319DOI: (10.1016/j.celrep.2014.03.071) Copyright © 2014 The Authors Terms and Conditions

Figure 2 Genomic Landscape of the Somatic Genomic Alterations in the Normal Tissues (A and B) Genome-wide mutational landscape showing pSCNAnorm (amplifications, blue; deletions, red) in apparently normal (A) ovarian cancer tissue and (B) peripheral blood of the ovarian cancer patients. Each row represents an individual. Chromosomes are indicated below. Faint vertical lines in each chromosome indicate centromere. Only the individuals with at least one detectable pSCNAnorm in the cohort are shown. The individuals with germline BRCA1 or BRCA2 mutations are shown separately. (C) Comparing the mutation landscape of apparently normal peripheral blood with that of 26 different cancer types combined, as analyzed by Beroukhim et al. (2010). The balance of blue and red shades indicates the proportion of amplifications and deletions. Heights of the bars indicate prevalence of such events in the genome. Cell Reports 2014 7, 1310-1319DOI: (10.1016/j.celrep.2014.03.071) Copyright © 2014 The Authors Terms and Conditions

Figure 3 Significance of the Somatic Genomic Alterations in the Normal Tissues (A) Frequency of the common cancer gene mutations in ovarian cancer patients who had no pSCNAbl (black) and those who have ≥4 pSCNAbl (grey). (B) Kaplan Meier curve showing difference in the survival patterns between the ovarian cancer patients who have no pSCNAbl (black) and those who have ≥4 pSCNAbl (red). The difference was statistically significant (log rank test, p value 3.64 × 10-4). Cell Reports 2014 7, 1310-1319DOI: (10.1016/j.celrep.2014.03.071) Copyright © 2014 The Authors Terms and Conditions