Objectives: APOBEC3 subfamily proteins protect human cells from viral infection by introducing mutations to single-stranded DNA and edit genomic DNA by creating double-stranded DNA breaks. APOBEC3 activity is associated with two single-base substitution signatures (SBS), 2 and 13, out of 44 SBS cancer mutation signatures. A germline 30Kb deletion affecting APOBEC3A and APOBEC3B eliminates the coding region of the APOBEC3B gene and creates the APOBEC3A/B fusion transcript. The deletion has been associated with the risk of different cancer types. This study aimed to assess the risk association between the APOBEC3A/B deletion variant and ovarian cancer. Methods: To assess the APOBEC3A/B polymorphism status, DNA extracted from the blood samples of ovarian cancer patients (n=1,398), and healthy female controls (n=1,918) were genotyped using quantitative PCR high-resolution melting (qPCR-HRM) curves. Only participants without detected BRCA1/2 mutations were included for the present analysis. Results were technically validated by genotyping of 21% of the sample set for SNP (rs12628403), an SNP found to be in strong linkage disequilibrium with the deletion allele. Validation of findings from the present study was performed using mining the SNP rs12628403 from Genome-Wide Association Study of Ovarian Cancer Association Consortium (OCAC) derived from >18,000 cases and >26,000 controls. Results: Both ovarian cancer and control cohorts were in Hardy-Weinberg equilibrium for APOBEC3A/B deletion allele distribution (p=0.386 and p>0.4, with a MAF of 0.072 and 0.094, respectively). The deletion allele was associated with reduced risk for ovarian cancer, applying a dominant, allele or recessive models (OR: 0.75, 95% CI: 0.61-0.91, p=0.003; OR: 0.74, 95% CI: 0.62-0.89, p=0.001, and OR: 0.36, 95% CI: 0.10-0.99, p=0.034, respectively). Stratifying patients by age groups, a significantly reduced risk was found among individuals aged 50-59 and 60-69 years. The same association was seen applying dominant and allele models in subgroup analysis by histology; deletion was associated with a reduced risk in serous and non-serous ovarian cancers. The validation analysis with OCAC revealed a trend towards reduced cancer risk, although not reaching statistical significance. Conclusions: APOBEC3A/B deletion variant shows a risk-reducing effect for ovarian cancer in the study population. This pattern maintains in serous and non-serous ovarian cancer subgroups. Objectives: APOBEC3 subfamily proteins protect human cells from viral infection by introducing mutations to single-stranded DNA and edit genomic DNA by creating double-stranded DNA breaks. APOBEC3 activity is associated with two single-base substitution signatures (SBS), 2 and 13, out of 44 SBS cancer mutation signatures. A germline 30Kb deletion affecting APOBEC3A and APOBEC3B eliminates the coding region of the APOBEC3B gene and creates the APOBEC3A/B fusion transcript. The deletion has been associated with the risk of different cancer types. This study aimed to assess the risk association between the APOBEC3A/B deletion variant and ovarian cancer. Methods: To assess the APOBEC3A/B polymorphism status, DNA extracted from the blood samples of ovarian cancer patients (n=1,398), and healthy female controls (n=1,918) were genotyped using quantitative PCR high-resolution melting (qPCR-HRM) curves. Only participants without detected BRCA1/2 mutations were included for the present analysis. Results were technically validated by genotyping of 21% of the sample set for SNP (rs12628403), an SNP found to be in strong linkage disequilibrium with the deletion allele. Validation of findings from the present study was performed using mining the SNP rs12628403 from Genome-Wide Association Study of Ovarian Cancer Association Consortium (OCAC) derived from >18,000 cases and >26,000 controls. Results: Both ovarian cancer and control cohorts were in Hardy-Weinberg equilibrium for APOBEC3A/B deletion allele distribution (p=0.386 and p>0.4, with a MAF of 0.072 and 0.094, respectively). The deletion allele was associated with reduced risk for ovarian cancer, applying a dominant, allele or recessive models (OR: 0.75, 95% CI: 0.61-0.91, p=0.003; OR: 0.74, 95% CI: 0.62-0.89, p=0.001, and OR: 0.36, 95% CI: 0.10-0.99, p=0.034, respectively). Stratifying patients by age groups, a significantly reduced risk was found among individuals aged 50-59 and 60-69 years. The same association was seen applying dominant and allele models in subgroup analysis by histology; deletion was associated with a reduced risk in serous and non-serous ovarian cancers. The validation analysis with OCAC revealed a trend towards reduced cancer risk, although not reaching statistical significance. Conclusions: APOBEC3A/B deletion variant shows a risk-reducing effect for ovarian cancer in the study population. This pattern maintains in serous and non-serous ovarian cancer subgroups.