Classification of missense substitutions in the BRCA genes: A database dedicated to Ex-UVs

Maxime P. Vallée, Tiana C. Francy, Megan K. Judkins, Davit Babikyan, Fabienne Lesueur, Amanda Gammon, David E. Goldgar, Fergus J Couch, Sean V. Tavtigian

Research output: Contribution to journalArticle

50 Citations (Scopus)

Abstract

Unclassified sequence variants (UVs) arising from clinical mutation screening of cancer susceptibility genes present a frustrating issue to clinical genetics services and the patients that they serve. We created an open-access database holding missense substitutions from the breast and ovarian cancer susceptibility genes BRCA1 and BRCA2. The main inclusion criterion is that each variant should have been assessed in a published work that used the Bayesian integrated evaluation of unclassified BRCA gene variants. Transfer of data on these substitutions from the original publications to our database afforded an opportunity to analyze the missense substitutions under a single model and to remove inconsistencies that arose during the evolution of the integrated evaluation over the last decade. This analysis also afforded the opportunity to reclassify these missense substitutions according to the recently published IARC 5-Class system. From an initial set of 248 missense substitutions, 31 were set aside due to nonnegligible probability to interfere with splicing. Of the remaining substitutions, 28 fell into one of the two pathogenic classes (IARC Class 4 or 5), 174 fell into one of the two nonpathogenic classes (IARC Class 1 or 2), and 15 remain in IARC Class 3, "Uncertain." The database is available at http://brca.iarc.fr/LOVD.

Original languageEnglish (US)
Pages (from-to)22-28
Number of pages7
JournalHuman Mutation
Volume33
Issue number1
DOIs
StatePublished - Jan 2012

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Neoplasm Genes
Databases
Genetic Services
Genes
Ovarian Neoplasms
Publications
Breast Neoplasms
Mutation

Keywords

  • Brca1
  • BRCA2
  • Database
  • Unclassified variant
  • UV
  • VUS

ASJC Scopus subject areas

  • Genetics
  • Genetics(clinical)

Cite this

Vallée, M. P., Francy, T. C., Judkins, M. K., Babikyan, D., Lesueur, F., Gammon, A., ... Tavtigian, S. V. (2012). Classification of missense substitutions in the BRCA genes: A database dedicated to Ex-UVs. Human Mutation, 33(1), 22-28. https://doi.org/10.1002/humu.21629

Classification of missense substitutions in the BRCA genes : A database dedicated to Ex-UVs. / Vallée, Maxime P.; Francy, Tiana C.; Judkins, Megan K.; Babikyan, Davit; Lesueur, Fabienne; Gammon, Amanda; Goldgar, David E.; Couch, Fergus J; Tavtigian, Sean V.

In: Human Mutation, Vol. 33, No. 1, 01.2012, p. 22-28.

Research output: Contribution to journalArticle

Vallée, MP, Francy, TC, Judkins, MK, Babikyan, D, Lesueur, F, Gammon, A, Goldgar, DE, Couch, FJ & Tavtigian, SV 2012, 'Classification of missense substitutions in the BRCA genes: A database dedicated to Ex-UVs', Human Mutation, vol. 33, no. 1, pp. 22-28. https://doi.org/10.1002/humu.21629
Vallée MP, Francy TC, Judkins MK, Babikyan D, Lesueur F, Gammon A et al. Classification of missense substitutions in the BRCA genes: A database dedicated to Ex-UVs. Human Mutation. 2012 Jan;33(1):22-28. https://doi.org/10.1002/humu.21629
Vallée, Maxime P. ; Francy, Tiana C. ; Judkins, Megan K. ; Babikyan, Davit ; Lesueur, Fabienne ; Gammon, Amanda ; Goldgar, David E. ; Couch, Fergus J ; Tavtigian, Sean V. / Classification of missense substitutions in the BRCA genes : A database dedicated to Ex-UVs. In: Human Mutation. 2012 ; Vol. 33, No. 1. pp. 22-28.
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