Prediction of a time-to-event trait using genome wide SNP data.

TitlePrediction of a time-to-event trait using genome wide SNP data.
Publication TypeJournal Article
Year of Publication2013
AuthorsKim, Jinseog, Insuk Sohn, Dae-Soon Son, Dong Hwan Kim, Taejin Ahn, and Sin-Ho Jung
JournalBMC Bioinformatics
Date Published2013 Feb 19
KeywordsAlgorithms, Genome-Wide Association Study, Genomics, Humans, Leukemia, Myeloid, Acute, Models, Genetic, Polymorphism, Single Nucleotide, Proportional Hazards Models

BACKGROUND: A popular objective of many high-throughput genome projects is to discover various genomic markers associated with traits and develop statistical models to predict traits of future patients based on marker values.RESULTS: In this paper, we present a prediction method for time-to-event traits using genome-wide single-nucleotide polymorphisms (SNPs). We also propose a MaxTest associating between a time-to-event trait and a SNP accounting for its possible genetic models. The proposed MaxTest can help screen out nonprognostic SNPs and identify genetic models of prognostic SNPs. The performance of the proposed method is evaluated through simulations.CONCLUSIONS: In conjunction with the MaxTest, the proposed method provides more parsimonious prediction models but includes more prognostic SNPs than some naive prediction methods. The proposed method is demonstrated with real GWAS data.

Alternate JournalBMC Bioinformatics
Original PublicationPrediction of a time-to-event trait using genome wide SNP data.
PubMed ID23418752
PubMed Central IDPMC3651372
Grant ListP01 CA142538 / CA / NCI NIH HHS / United States
CA142538 / CA / NCI NIH HHS / United States