Additive risk survival model with microarray data

Shuangge Ma, Jian Huang

Research output: Journal article publicationJournal articleAcademic researchpeer-review

29 Citations (Scopus)

Abstract

Background: Microarray techniques survey gene expressions on a global scale. Extensive biomedical studies have been designed to discover subsets of genes that are associated with survival risks for diseases such as lymphoma and construct predictive models using those selected genes. In this article, we investigate simultaneous estimation and gene selection with right censored survival data and high dimensional gene expression measurements. Results: We model the survival time using the additive risk model, which provides a useful alternative to the proportional hazards model and is adopted when the absolute effects, instead of the relative effects, of multiple predictors on the hazard function are of interest. A Lasso (least absolute shrinkage and selection operator) type estimate is proposed for simultaneous estimation and gene selection. Tuning parameter is selected using the V-fold cross validation. We propose Leave-One-Out cross validation based methods for evaluating the relative stability of individual genes and overall prediction significance. Conclusion: We analyze the MCL and DLBCL data using the proposed approach. A small number of probes represented on the microarrays are identified, most of which have sound biological implications in lymphoma development. The selected probes are relatively stable and the proposed approach has overall satisfactory prediction power.
Original languageEnglish
Article number192
JournalBMC Bioinformatics
Volume8
DOIs
Publication statusPublished - 8 Jun 2007
Externally publishedYes

ASJC Scopus subject areas

  • Structural Biology
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Applied Mathematics

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