Methods of Microarray Data Analysis IV

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Jennifer S. Shoemaker, Simon M. Lin
Springer Science & Business Media, Oct 29, 2004 - Medical - 256 pages

As studies using microarray technology have evolved, so have the data analysis methods used to analyze these experiments. The CAMDA conference plays a role in this evolving field by providing a forum in which investors can analyze the same data sets using different methods. Methods of Microarray Data Analysis IV is the fourth book in this series, and focuses on the important issue of associating array data with a survival endpoint. Previous books in this series focused on classification (Volume I), pattern recognition (Volume II), and quality control issues (Volume III).

In this volume, four lung cancer data sets are the focus of analysis. We highlight three tutorial papers, including one to assist with a basic understanding of lung cancer, a review of survival analysis in the gene expression literature, and a paper on replication. In addition, 14 papers presented at the conference are included. This book is an excellent reference for academic and industrial researchers who want to keep abreast of the state of the art of microarray data analysis.

Jennifer Shoemaker is a faculty member in the Department of Biostatistics and Bioinformatics and the Director of the Bioinformatics Unit for the Cancer and Leukemia Group B Statistical Center, Duke University Medical Center. Simon Lin is a faculty member in the Department of Biostatistics and Bioinformatics and the Manager of the Duke Bioinformatics Shared Resource, Duke University Medical Center.

 

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Contents

CANCER CLINICAL CHALLENGES AND OPPORTUNITIES
9
GENE EXPRESSION DATA AND SURVIVAL ANALYSIS
21
THE NEEDED REPLICATES OF ARRAYS IN MICROARRAY EXPERIMENTS FOR RELIABLE STATISTICAL EVALUATION
35
POOLING INFORMATION ACROSS DIFFERENT STUDIES AND OLIGONUCLEOTIDE CHIP TYPES TO IDENTIFY PROGNOSTIC GENES FO...
51
APPLICATION OF SURVIVAL AND METAANALYSIS TO GENE EXPRESSION DATA COMBINED FROM TWO STUDIES
67
MAKING SENSE OF HUMAN LUNG CARCINOMAS GENE EXPRESSION DATA INTEGRATION AND ANALYSIS OF TWO AFFYMETRIX P...
81
ENTROPY AND SURVIVALBASED WEIGHTS TO COMBINE AFFYMETRIX ARRAY TYPES AND ANALYZE DIFFERENTIAL EXPRESSION ...
95
ASSOCIATING MICROARRAY DATA WITH A SURVIVAL ENDPOINT
109
INTEGRATION OF MICROARRAY DATA FOR A COMPARATIVE STUDY OF CLASSIFIERS AND IDENTIFICATION OF MARKER GENES
147
USE OF MICROARRAY DATA VIA MODELBASED CLASSIFICATION IN THE STUDY AND PREDICTION OF SURVIVAL FROM LUNG CAN...
163
MICROARRAY DATA ANALYSIS OF SURVIVAL TIMES OF PATIENTS WITH LUNG ADENOCARCINOMAS USING ADC AND KMEDIANS ...
175
HIGHER DIMENSIONAL APPROACH FOR CLASSIFICATION OF LUNG CANCER MICROARRAY DATA
191
MICROARRAY DATA ANALYSIS USING NEURAL NETWORK CLASSIFIERS AND GENE SELECTION METHODS
207
A COMBINATORIAL APPROACH TO THE ANALYSIS OF DIFFERENTIAL GENE EXPRESSION DATA
223
GENES ASSOCIATED WITH PROGNOSIS IN ADENOCARCINOMA ACROSS STUDIES AT MULTIPLE INSTITUTIONS
239
Index
255

DIFFERENTIAL CORRELATION DETECTS COMPLEX ASSOCIATIONS BETWEEN GENE EXPRESSION AND CLINICAL OUTCOMES IN LU...
121
PROBABILISTIC LUNG CANCER MODELS CONDITIONED ON GENE EXPRESSION MICROARRAY DATA
133

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