Anne Macgregor-Das

Supplementary Table S4: Minor allele frequencies by racial group in controls

Supplementary Table S2: Clinicopathological features and CA125 levels in controls and patients with PDAC

Supplementary Table S6: Clinical features of PDAC cases with true positive vs false negative CA125 levels (variant-based classification)

Supplementary Figure S2: CA125 levels by variant in 807 control subjects

Background:Cancer antigen 125 (CA125) is widely recognized as a useful biomarker for the surveillance of patients with ovarian and other cancers. Prior genome-wide association studies have identified variants that influence CA125 levels. We evaluated the utility of stratifying CA125 levels by such variants and evaluated diagnostic performance in control subjects and patients with pancreatic ductal adenocarcinoma (PDAC).Methods:We measured CA125 levels in 807 control subjects and 450 patients with PDAC and genotyped 10 variants involving four genes (GAL3ST2, MSLN, D2HGDH, and MUC16). We compared CA125 levels in controls by variant and generated variant-defined CA125 cutoffs and then classified cases and controls into functional groups based on their variant profile. We used this variant classification to evaluate the diagnostic performance of CA125 in patients with PDAC.Results:Six variants associated with CA125 levels were used to group controls into one of four groups. Mean CA125 levels in the highest variant group were approximately fourfold higher than in the lowest group. African Americans were more likely to have a variant group associated with low CA125 levels. After setting diagnostic cutoffs by variant group, the diagnostic sensitivity of CA125 for PDAC was 20.2% at 98% specificity (areas under the ROC curve, 0.702), not significantly different from a uniform CA125 diagnostic cutoff (areas under the ROC curve, 0.700).Conclusions:Gene variants can be used to generate personalized CA125 reference ranges. This approach did not significantly improve CA125’s diagnostic performance for pancreatic cancer, but it merits evaluation in other diagnostic settings, such as detecting ovarian cancer.Impact:Gene variants can be used to personalize CA125 levels.

Supplementary Figure S4: CA125 levels by variant group

Supplementary Table S3: Clinical features by gene variant-group in controls and patients with PDAC

Supplementary Figure S1: Relationship between CA125 levels and rs12469459 in controls

Supplementary Table S1: Gene variants associated CA125 levels

Supplementary Table S5: AUCs for CA125 in PDAC cases vs. controls with and without the variant-based classification