Methods in Enzymology V410

Array Platforms and Wet-Bench Protocols: Volume 410

By: Kimmel

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Hardcover | 28 August 2006 | Edition Number 410

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Hardcover
512 Pages

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23.5 x 15.88 x 1.91

Hardcover

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Modern DNA microarray technologies have evolved over the past 25 years to the point where it is now possible to take many million measurements from a single experiment. These two volumes, Parts A & B in the Methods in Enzymology series provide methods that will shepard any molecular biologist through the process of planning, performing, and publishing microarray results.

Part A starts with an overview of a number of microarray platforms, both commercial and academically produced and includes wet bench protocols for performing traditional expression analysis and derivative techniques such as detection of transcription factor occupancy and chromatin status. Wet-bench protocols and troubleshooting techniques continue into Part B. These techniques are well rooted in traditional molecular biology and while they require traditional care, a researcher that can reproducibly generate beautiful Northern or Southern blots should have no difficulty generating beautiful array hybridizations.

Data management is a more recent problem for most biologists. The bulk of Part B provides a range of techniques for data handling. This includes critical issues, from normalization within and between arrays, to uploading your results to the public repositories for array data, and how to integrate data from multiple sources. There are chapters in Part B for both the debutant and the expert bioinformatician.

Provides an overview of platforms
Includes experimental design and wet bench protocols
Presents statistical and data analysis methods, array databases, data visualization and meta-analysis

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Non-Fiction Science Biology, Life Sciences Molecular Biology Biochemistry Enzymology Life Sciences in General Genetics excluding Medical DNA & Genome Cellular Biology Physics Applied Physics

Biophysics

Contributors to Volume 410	p. ix
Volumes in Series	p. xiii
Array Platforms
The Affymetrix GeneChip Platform: An Overview	p. 3
The Agilent In Situ-Synthesized Microarray Platform	p. 28
Illumina Universal Bead Arrays	p. 57
Microarray Oligonucleotide Probes	p. 73
Automated Liquid Handling and High-Throughput Preparation of Polymerase Chain Reaction-Amplified DNA for Microarray Fabrication	p. 99
The Printing Process: Tips on Tips	p. 121
Making and Using Spotted DNA Microarrays in an Academic Core Laboratory	p. 135
Printing Your Own Inkjet Microarrays	p. 168
Peptide Nucleic Acid Microarrays Made with (S,S)-trans-Cyclopentane-Constrained Peptide Nucleic Acids	p. 189
Wet-Bench Protocols
Optimizing Experiment and Analysis Parameters for Spotted Microarrays	p. 203
Sample Labeling: An Overview	p. 222
Genomic DNA as a General Cohybridization Standard for Ratiometric Microarrays	p. 237
Analysis of Sequence Specificities of DNA-Binding Proteins with Protein Binding Microarrays	p. 279
Microarray Analysis of RNA Processing and Modification	p. 300
Mapping the Distribution of Chromatin Proteins by ChIP on Chip	p. 316
DamID: Mapping of In Vivo Protein-Genome Interactions Using Tethered DNA Adenine Methyltransferase	p. 342
Whole-Genome Genotyping	p. 359
Mapping Drosophila Genomic Aberration Breakpoints with Comparative Genome Hybridization on Microarrays	p. 377
Performing Quantitative Reverse-Transcribed Polymerase Chain Reaction Experiments	p. 386
The Application of Tissue Microarrays in the Validation of Microarray Results	p. 400
Mapping Histone Modifications by Nucleosome Immunoprecipitation	p. 416
Author Index	p. 431
Subject Index	p. 461
Table of Contents provided by Ingram. All Rights Reserved.

Methods in Enzymology V410

Array Platforms and Wet-Bench Protocols: Volume 410

At a Glance

Hardcover

Shipping

How to return your order

Defective items

You Can Find This Book In

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