Jan 5, 2017

Pathway-Structured Predictive Model for Cancer Survival Prediction: A Two-Stage Approach

Genetics
Xinyan ZhangNengjun Yi

Abstract

Heterogeneity in terms of tumor characteristics, prognosis, and survival among cancer patients has been a persistent problem for many decades. Currently, prognosis and outcome predictions are made based on clinical factors and/or by incorporating molecular profiling data. However, inaccurate prognosis and prediction may result by using only clinical or molecular information directly. One of the main shortcomings of past studies is the failure to incorporate prior biological information into the predictive model, given strong evidence of the pathway-based genetic nature of cancer, i.e., the potential for oncogenes to be grouped into pathways based on biological functions such as cell survival, proliferation, and metastatic dissemination. To address this problem, we propose a two-stage approach to incorporate pathway information into the prognostic modeling using large-scale gene expression data. In the first stage, we fit all predictors within each pathway using the penalized Cox model and Bayesian hierarchical Cox model. In the second stage, we combine the cross-validated prognostic scores of all pathways obtained in the first stage as new predictors to build an integrated prognostic model for prediction. We apply the proposed ...Continue Reading

Mentioned in this Paper

Study
Biochemical Pathway
Microarray Analysis
Gene Expression Regulation, Neoplastic
The Cancer Genome Atlas
Genome
Ovarian Neoplasm
Neoplasms
Cross Validation
Molecular Profiling

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