scholarly journals ChIP-Array: combinatory analysis of ChIP-seq/chip and microarray gene expression data to discover direct/indirect targets of a transcription factor

2011 ◽  
Vol 39 (suppl_2) ◽  
pp. W430-W436 ◽  
Author(s):  
Jing Qin ◽  
Mulin Jun Li ◽  
Panwen Wang ◽  
Michael Q. Zhang ◽  
Junwen Wang
Keyword(s):  
Gene Expression ◽  
Transcription Factor ◽  
Gene Expression Data ◽  
Microarray Gene Expression Data ◽  
Expression Data ◽  
Microarray Gene Expression ◽  
Microarray Gene

Cox Survival Analysis of Microarray Gene Expression Data Using Correlation Principal Component Regression

2007 ◽  
Vol 6 (1) ◽  
Author(s):  
Qiang Zhao ◽  
Jianguo Sun
Keyword(s):  
Gene Expression ◽  
Gene Expression Data ◽  
Principal Component Regression ◽  
Predictive Ability ◽  
Principal Component ◽  
Microarray Gene Expression Data ◽  
Expression Data ◽  
Microarray Gene Expression ◽  
New Approach ◽  
Microarray Gene

Statistical analysis of microarray gene expression data has recently attracted a great deal of attention. One problem of interest is to relate genes to survival outcomes of patients with the purpose of building regression models for the prediction of future patients' survival based on their gene expression data. For this, several authors have discussed the use of the proportional hazards or Cox model after reducing the dimension of the gene expression data. This paper presents a new approach to conduct the Cox survival analysis of microarray gene expression data with the focus on models' predictive ability. The method modifies the correlation principal component regression (Sun, 1995) to handle the censoring problem of survival data. The results based on simulated data and a set of publicly available data on diffuse large B-cell lymphoma show that the proposed method works well in terms of models' robustness and predictive ability in comparison with some existing partial least squares approaches. Also, the new approach is simpler and easy to implement.

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