Table 1.
Input | Inclusion | Exclusion |
---|---|---|
Individual | Referred by health care provider order for a Color test | Participant in another research study |
Informed consent | >10 missing phenotype data pointsa | |
Sample passed internal quality control | ||
Phenotype data | Reported health history via online Color account | Reported event age > current individual age |
Reported age, gender, number of children, number of siblings (unless reported to be adopted) | For numeric data points: An absolute modified Z-score > 5 or above Q3 + 3*IQR or below Q1 − 3*IQR | |
Genotype data | Sequenced for 30 genes associated with hereditary cancer risk | For variants in SMAD4:b Allele frequency < 0.3 |
Read depth ≥ 20If variant sent for secondary confirmation, confirmed presentVariant classification submitted to ClinVar | For variants in genes other than SMAD4: Allele frequency < 0.2 and reference allele or alternate allele length < 10 bpCalled only by Scalpel |
aIf an individual has >10 phenotype data points missing, that individual is excluded from the database.
b SMAD4 has a common processed pseudogene, which may result in artifacts at lower allele fractions. Q, quartile. IQR, interquartile range.