DNA Microarrays

U. Nuber0-203-96733-X

The BIOS Advanced Methods series is intended for advanced undergraduates, graduate students and established research scientists. Titles in the series are designed to cover current important areas of research in life sciences, and include both theoretical background and detailed protocols. The aim is to give researchers sufficient theory, supported by references, to take the given protocols and adapt them to their particular experimental systems.DNA miroarrays are relatively new, powerful tool, which allows for the large-scale analysis of DNA samples. A DNA microarray is a miniaturized hybridization format consisting of an ordered array of hundreds to thousands of DNA probes immobilized on glass slides. Applications of DNA microarrays include gene expression studies and detection of small differences between DNA molecules.The book introduces all up-to-date microarray platforms and their various applications. It has been written for scientists who are entering the field of DNA microarrays aswell as those already familiar with the technology, but interested in new applications and methods.

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Table of contents :
Book Cover……Page 1
Title……Page 4
Copyright……Page 5
Contents……Page 6
Abbreviations……Page 12
1 Introduction: DNA microarrays – ten years old, but no old hat……Page 14
2 cDNA microarray analysis and its role in toxicology – a case study……Page 20
3 Gene expression profiling in plants using cDNA microarrays……Page 38
4 Identification of gene expression patterns for a molecular diagnosis of kidney tumors……Page 52
5 Gene expression analysis of differentiating neural progenitor cells – a time course study……Page 64
6 A microarray-based screening method for known and novel SNPs……Page 78
7 From gene chips to disease chips – new approach in molecular diagnosis of eye diseases……Page 96
8 Multiplexed SNP genotyping using allele-specific primer extension on microarrays……Page 110
9 Profiling the Arabidopsis transcriptome……Page 124
10 Affymetrix GeneChip analyses – the impact of RNA quality……Page 138
11 Molecular karyotyping by means of array CGH: linking gene dosage alterations to disease phenotypes……Page 152
12 DNA microarrays: analysis of chromosomes and their aberrations……Page 170
13 Mapping transcription factor binding sites using ChIP-chip – general considerations……Page 184
14 ChIP-on-chip: searching for novel transcription factor targets……Page 192
15 Turning photons into results: principles of fluorescent microarray scanning……Page 204
16 Microarray detection with laser scanning device……Page 224
17 Normalization strategies for microarray data analysis……Page 236
18 Microarray data analysis: Differential gene expression……Page 248
19 Clustering and classification methods for gene expression data analysis……Page 262
20 Statistical analysis of microarray time course data……Page 278
21 Array CGH data analysis……Page 302
22 Miame……Page 312
Index……Page 318