Chapter 1
Microarray Platforms.............. ... ................ ..... .................. 1
Patrick M. Gaffney and Kathy L. Moser
Chapter 2
Normalization of Microarray Data ................ ..................... 9
Rudolph S. Parrish and Robert R. Delongchamp
Chapter 3
Microarray Quality Control and Assessment ........................... ....... 29
David Finkelstein, Michael Janis, Alan Williams, Kathryn Steiger, and
Jacques Retief
Chapter 4
Epistemological Foundations of Statistical Methods for High-Dimensional
Biology................................................ 57
Stanislav O. Zakharkin, Tapan Mehta, Murat Tanik, and David B. Allison
Chapter 5
The Role of Sample Size on Measures of Uncertainty and Power ............... 77
Gary L. Gadbury, Qinfang Xiang, Jode W Edwards, Grier P Page, and
David B. Allison
Chapter 6
Pooling Biological Samples in Microarray Experiments.......... ................. 95
Christina M. Kendziorski
Chapter 7
Designing Microarrays for the Analysis of Gene Expressions ................... 111
Jane Y Chang and Jason C. Hsu
Chapter 8
Overview of Standard Clustering Approaches for Gene Microarray Data
Analysis................................ ............... . 131
Elizabeth Garrett-Mayer
Chapter 9
Cluster Stability ................... . ............................. 159
Bernard S. Gorman and Kui Zhang
Chapter 10
Dimensionality Reduction and Discrimination .................................. 177
Jeanne Kowalski and Zhen Zhang
Chapter 11
Modeling Affymetrix Data at the Probe Level............... ................. 197
Tzu-Ming Chu, Shibing Deng, and Russell D. Wolfinger
Chapter 12
Parametric Linear Models............................ ..................... 223
Christopher S. Coffey and Stacey S. Cofield
Chapter 13
The Use of Nonparametric Procedures in the Statistical Analysis of
Microarray Data ................. . .... .. .............. ................ 245
T Mark Beasley, Jacob PL. Brand, and Jeffrey D. Long
Chapter 14
Bayesian Analysis of Microarray Data................... ................ 267
Jode W Edwards and Pulak Ghosh
Chapter 15
False Discovery Rate and Multiple Comparison Procedures..................... 289
Chiara Sabatti
Chapter 16
Using Standards to Facilitate Interoperation of Heterogeneous Microarray
Databases and Analytic Tools............................... ................. 305
Kei-Hoi Cheung
Chapter 17
Postanalysis Interpretation: "What Do I Do with This Gene List?" .............. 321
Michael V Osier
Chapter 18
Combining High Dimensional Biological Data to Study Complex Diseases
and Quantitative Traits ................... ................... ....... .......... 335
Grier P Page and Douglas M. Ruden