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Joint effect of multiple common SNPs predicts melanoma susceptibility.

Publication ,  Journal Article
Fang, S; Han, J; Zhang, M; Wang, L-E; Wei, Q; Amos, CI; Lee, JE
Published in: PLoS One
2013

Single genetic variants discovered so far have been only weakly associated with melanoma. This study aims to use multiple single nucleotide polymorphisms (SNPs) jointly to obtain a larger genetic effect and to improve the predictive value of a conventional phenotypic model. We analyzed 11 SNPs that were associated with melanoma risk in previous studies and were genotyped in MD Anderson Cancer Center (MDACC) and Harvard Medical School investigations. Participants with ≥15 risk alleles were 5-fold more likely to have melanoma compared to those carrying ≤6. Compared to a model using the most significant single variant rs12913832, the increase in predictive value for the model using a polygenic risk score (PRS) comprised of 11 SNPs was 0.07(95% CI, 0.05-0.07). The overall predictive value of the PRS together with conventional phenotypic factors in the MDACC population was 0.69 (95% CI, 0.64-0.69). PRS significantly improved the risk prediction and reclassification in melanoma as compared with the conventional model. Our study suggests that a polygenic profile can improve the predictive value of an individual gene polymorphism and may be able to significantly improve the predictive value beyond conventional phenotypic melanoma risk factors.

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Published In

PLoS One

DOI

EISSN

1932-6203

Publication Date

2013

Volume

8

Issue

12

Start / End Page

e85642

Location

United States

Related Subject Headings

  • Polymorphism, Single Nucleotide
  • Phenotype
  • Middle Aged
  • Melanoma
  • Male
  • Humans
  • Genetic Predisposition to Disease
  • General Science & Technology
  • Female
  • Computational Biology
 

Citation

APA
Chicago
ICMJE
MLA
NLM
Fang, S., Han, J., Zhang, M., Wang, L.-E., Wei, Q., Amos, C. I., & Lee, J. E. (2013). Joint effect of multiple common SNPs predicts melanoma susceptibility. PLoS One, 8(12), e85642. https://doi.org/10.1371/journal.pone.0085642
Fang, Shenying, Jiali Han, Mingfeng Zhang, Li-e Wang, Qingyi Wei, Christopher I. Amos, and Jeffrey E. Lee. “Joint effect of multiple common SNPs predicts melanoma susceptibility.PLoS One 8, no. 12 (2013): e85642. https://doi.org/10.1371/journal.pone.0085642.
Fang S, Han J, Zhang M, Wang L-E, Wei Q, Amos CI, et al. Joint effect of multiple common SNPs predicts melanoma susceptibility. PLoS One. 2013;8(12):e85642.
Fang, Shenying, et al. “Joint effect of multiple common SNPs predicts melanoma susceptibility.PLoS One, vol. 8, no. 12, 2013, p. e85642. Pubmed, doi:10.1371/journal.pone.0085642.
Fang S, Han J, Zhang M, Wang L-E, Wei Q, Amos CI, Lee JE. Joint effect of multiple common SNPs predicts melanoma susceptibility. PLoS One. 2013;8(12):e85642.

Published In

PLoS One

DOI

EISSN

1932-6203

Publication Date

2013

Volume

8

Issue

12

Start / End Page

e85642

Location

United States

Related Subject Headings

  • Polymorphism, Single Nucleotide
  • Phenotype
  • Middle Aged
  • Melanoma
  • Male
  • Humans
  • Genetic Predisposition to Disease
  • General Science & Technology
  • Female
  • Computational Biology