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E-book: Statistical Analysis of Gene Expression Microarray Data

3.17/5 (12 ratings by Goodreads)
Edited by (University of California, Berkeley, USA)
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Four chapters describe statistical techniques for analyzing the genetic microarray data generated by large-scale, high throughput assays. The authors, who are affiliated with the University of California, Stanford, and Harvard, discuss the model-based analysis of oligonucleotide assays, different approaches for cDNA array data, the design and analysis of comparative microarray experiments, statistical issues arising in the classification of biological samples, and both partitioning methods and hierarchical methods for clustering data. The book will be of interest to biostatisticians and geneticists. Annotation (c) Book News, Inc., Portland, OR (booknews.com)

Although less than a decade old, the field of microarray data analysis is now thriving and growing at a remarkable pace. Biologists, geneticists, and computer scientists as well as statisticians all need an accessible, systematic treatment of the techniques used for analyzing the vast amounts of data generated by large-scale gene expression studies. And there is arguably no group better qualified to do so than the authors of this book.Statistical Analysis of Gene Expression Microarray Data promises to become the definitive basic reference in the field. Under the editorship of Terry Speed, some of the world's most pre-eminent authorities have joined forces to present the tools, features, and problems associated with the analysis of genetic microarray data. These include::"Model-based analysis of oligonucleotide arrays, including expression index computation, outlier detection, and standard error applications"Design and analysis of comparative experiments involving microarrays, with focus on \ two-color cDNA or long oligonucleotide arrays on glass slides "Classification issues, including the statistical foundations of classification and an overview of different classifiers"Clustering, partitioning, and hierarchical methods of analysis, including techniques related to principal components and singular value decompositionAlthough the technologies used in large-scale, high throughput assays will continue to evolve, statistical analysis will remain a cornerstone of their success and future development. Statistical Analysis of Gene Expression Microarray Data will help you meet the challenges of large, complex datasets and contribute to new methodological and computational advances.

Reviews

"The 10 authors are among the world's authorities on the statistical analysis of this new class of biotechnology . What I like best about this stimulating book is that it allows a simplified logical view of large complex multivariate data sets. I highly recommend this book for library purchase, and for individuals in the field ." - Journal of the Royal Statistical Society, Series A, Vol. 157 (3)



"Analysis for gene expression data is the latest hot new topic in statistical data analysis...[ this book] deals with microarray experiments: design and analysis for a comparative study, classification methods for data analysis, and clustering for data analysis. Scientists whose work concerns this type of data will want to get a copy of the book." -Technometrics, 2003



"This book is a milestone, documenting major significant advances in the statistical methodology. The four chapters, though independent, share common foci with issues of design, robustness, and the freely available associated software. The statistical ideas are introduced succinctly. The book is especially valuable for research scientists in the field seeking an understanding of the related statistical developments." - Short Book Reviews of the ISI

Model-based analysis of oligonucleotide arrays and issues in cDNA microarray analysis
1(35)
Cheng Li
George C. Tseng
Wing Hung Wong
Model-based analysis of oligonucleotide arrays
1(19)
Issues in cDNA microarray analysis
20(14)
Acknowledgments
34(1)
Design and analysis of comparative microarray experiments
35(58)
Yee Hwa Yang
Terry Speed
Introduction
35(1)
Experimental design
35(10)
Two-sample comparisons
45(24)
Single-factor experiments with more than two levels
69(13)
Factorial experiments
82(5)
Some topics for further research
87(6)
Classification in microarray experiments
93(66)
Sandrine Dudoit
Jane Fridlyand
Introduction
93(6)
Overview of different classifiers
99(16)
General issues in classification
115(7)
Performance assessment
122(5)
Aggregating predictors
127(5)
Datasets
132(2)
Results
134(20)
Discussion
154(3)
Software and datasets
157(1)
Acknowledgments
158(1)
Clustering microarray data
159(42)
Hugh Chipman
Trevor J. Hastie
Robert Tibshirani
An example
159(3)
Dissimilarity
162(4)
Clustering methods
166(2)
Partitioning methods
168(7)
Hierarchical methods
175(9)
Two-way clustering
184(6)
Principal components, the SVD, and gene shaving
190(7)
Other approaches
197(2)
Software
199(2)
References 201(12)
Index 213


Terry Speed