Table 2:
Variant Classification | |||||||
---|---|---|---|---|---|---|---|
Site | Study Arm | Study ID | Birthplace | Gene | Variant | Commercial Lab Classification | Current ClinVar† Classification |
Tampa | Intervention | 03 | Puerto Rico | CDH1 | c.1568A>G (p.Tyr523Cys) | VUS | VUS |
09 | Dominican Republic | N/A | Negative | N/A | N/A | ||
11 | Cuba | MSH2 | c.138C>G (p.His46Gln) | VUS | Likely Benign | ||
16 | Colombia | MSH6 | c.3757G>A (p.Val1253Ile) | VUS | VUS | ||
23 | Colombia | BRIP1 | c.1825A>G (p.Thr609Ala) | VUS | VUS | ||
25 | Cuba | CHEK2 | c.715G>T (p.Glu239*) | Pathogenic | Pathogenic | ||
27 | Puerto Rico | N/A | Negative | N/A | N/A | ||
28 | Colombia | N/A | Negative | N/A | N/A | ||
Ponce | Intervention | 62 | Puerto Rico | N/A | Negative | N/A | N/A |
63 | Puerto Rico | N/A | Negative | N/A | N/A | ||
66 | Puerto Rico | N/A | Negative | N/A | N/A | ||
67 | Puerto Rico | ATM | c.7740A>C (p.Arg2580Ser) | VUS | *Conflicting interpretations | ||
69 | Mainland US | CHEK2 | c.663C>G (p.Ile221Met) | VUS | VUS | ||
72 | Puerto Rico | N/A | Negative | N/A | N/A | ||
73 | Puerto Rico | N/A | Negative | N/A | N/A | ||
77 | Puerto Rico | N/A | Negative | N/A | N/A | ||
Control | 76 | Puerto Rico | NBN | c.1999T>C (p.Ser667Pro) | VUS | *Conflicting interpretations | |
78 | Puerto Rico | MSH6 | c.3071G>A (p.Arg1024Gln) | VUS | VUS | ||
81 | Puerto Rico | N/A | Negative | N/A | N/A | ||
83 | Puerto Rico | N/A | Negative | N/A | N/A |
VUS = Variant of Uncertain Significance
N/A = not applicable
National Center for Biotechnology Information. ClinVar. Retrieved from https://www.ncbi.nlm.nih.gov/clinvar/. Accessed April 8, 2020.
Conflicting interpretations of pathogenicity on ClinVar, “likely benign” vs. “VUS”