Journal article
Integrative Analysis of Cancer Diagnosis Studies with Composite Penalization
Scandinavian journal of statistics, theory and applications, Vol.41(1), pp.87-103
03/01/2014
DOI: 10.1111/j.1467-9469.2012.00816.x
PMCID: PMC3933169
PMID: 24578589
Abstract
In cancer diagnosis studies, high-throughput gene profiling has been extensively conducted, searching for genes whose expressions may serve as markers. Data generated from such studies have the “large d , small n ” feature, with the number of genes profiled much larger than the sample size. Penalization has been extensively adopted for simultaneous estimation and marker selection. Because of small sample sizes, markers identified from the analysis of single datasets can be unsatisfactory. A cost-effective remedy is to conduct integrative analysis of multiple heterogeneous datasets. In this article, we investigate composite penalization methods for estimation and marker selection in integrative analysis. The proposed methods use the minimax concave penalty (MCP) as the outer penalty. Under the homogeneity model, the ridge penalty is adopted as the inner penalty. Under the heterogeneity model, the Lasso penalty and MCP are adopted as the inner penalty. Effective computational algorithms based on coordinate descent are developed. Numerical studies, including simulation and analysis of practical cancer datasets, show satisfactory performance of the proposed methods.
Details
- Title: Subtitle
- Integrative Analysis of Cancer Diagnosis Studies with Composite Penalization
- Creators
- Jin Liu - Departments of Statistics & Actuarial Science and Biostatistics, University of IowaJian Huang - Departments of Statistics & Actuarial Science and Biostatistics, University of IowaShuangge Ma - Departments of Statistics & Actuarial Science and Biostatistics, University of Iowa
- Resource Type
- Journal article
- Publication Details
- Scandinavian journal of statistics, theory and applications, Vol.41(1), pp.87-103
- DOI
- 10.1111/j.1467-9469.2012.00816.x
- PMID
- 24578589
- PMCID
- PMC3933169
- NLM abbreviation
- Scand Stat Theory Appl
- ISSN
- 0303-6898
- eISSN
- 1467-9469
- Grant note
- R01 CA120988 || CA / National Cancer Institute : NCI R01 CA142774 || CA / National Cancer Institute : NCI
- Language
- English
- Date published
- 03/01/2014
- Academic Unit
- Statistics and Actuarial Science
- Record Identifier
- 9983985966302771
Metrics
12 Record Views