A Biologist's Guide to Analysis of DNA Microarray Data (eBook)

Steen Knudsen is Associate Professor and Deputy Director of the Center for Biological Sequence Analysis at the Technical University of Denmark. He received his Ph.D. from the University of Copenhagen in 1990 and joined the pioneers of bioinformatics with a publication in Nature that same year. His postdoctoral training in bioinformatics at Harvard University concerned computational gene finding in the human genome, and his current research is in the area of bioinformatics and genomics. He has been working with methods for analysis of DNA microarray data since 1998.

Preface.

Acknowledgments.

1. Introduction.

2. Overview of Data Analysis.

3. Basic Data Analysis.

4. Visualization by Reduction of Dimensionality.

5. Cluster Analysis.

6. Beyond Cluster Analysis.

7. Reverse Engineering of Regulatory Networks.

8. Molecular Classifiers.

9. Selection of Genes for Spotting on Arrays.

10. Limitations of Expression Analysis.

11. Genotyping Chips.

12. Software Issues and Data Formats.

13. Commercial Software Packages.

14. Bibliography.

Index.

"...a fine introduction to DNA microarray analysis using good
concrete examples, well reasoned descriptions...and much-needed
examination of the tools, technologies, and research
resources...after reading this book, anyone new to microarray data
should understand what can...be measured..." (Nature
Genetics, Vol. 33, March 2003)

"...I'd recommend anyone setting out to use this methodology to
buy a copy for the lab." (British Society for Cell Biology
Newsletter)

"...This useful little book .... I'd recommend anyone setting
out to use this methodology to buy a copy for the lab." (British
Society for Developmental Biology Newsletter)
"...provides a great introduction and overview of the computational methods associated with the anaylsis of microarray and chip data." - Gary Hardiman, Ph.D., Division of Biology, University of California San Diego, La Jolla, California