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  • © 2009

Microarray Analysis of the Physical Genome

Methods and Protocols

  • Provides an easily accessible reference volume for microarray-based analyses of the physical genome, written by leading researchers in the field
  • Covers a wide range of microarray platforms and applications
  • Details microarray approaches, "wet-bench" methods, and computational analyses
  • Provides easy to follow microarray protocols, with tips and expert commentary
  • Comprehensive guide to designing, running and analyzing microarray-based studies of the physical genome
  • Includes supplementary material: sn.pub/extras

Part of the book series: Methods in Molecular Biology (MIMB, volume 556)

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Table of contents (15 protocols)

  1. Front Matter

    Pages i-x
  2. Introduction

    • Jonathan R. Pollack
    Pages 1-6
  3. Comparative Genomic Hybridization on BAC Arrays

    • Bradley P. Coe, William W. Lockwood, Raj Chari, Wan L. Lam
    Pages 7-19
  4. Comparative Genomic Hybridization on Spotted Oligonucleotide Microarrays

    • Young H. Kim, Jonathan R. Pollack
    Pages 21-32
  5. Molecular Inversion Probe Assay for Allelic Quantitation

    • Hanlee Ji, Katrina Welch
    Pages 67-87
  6. Methylation Analysis by Microarray

    • Daniel E. Deatherage, Dustin Potter, Pearlly S. Yan, Tim H.-M. Huang, Shili Lin
    Pages 117-139
  7. Methylation Analysis by DNA Immunoprecipitation (MeDIP)

    • Emily A. Vucic, Ian M. Wilson, Jennifer M. Campbell, Wan L. Lam
    Pages 141-153
  8. ChIP-Chip: Algorithms for Calling Binding Sites

    • X. Shirley Liu, Clifford A. Meyer
    Pages 165-175
  9. Mapping Regulatory Elements by DNaseI Hypersensitivity Chip (DNase-Chip)

    • Yoichiro Shibata, Gregory E. Crawford
    Pages 177-190
  10. Microarray Analysis of DNA Replication Timing

    • Neerja Karnani, Christopher M. Taylor, Anindya Dutta
    Pages 191-203
  11. Integration of Diverse Microarray Data Types

    • Keyan Salari, Jonathan R. Pollack
    Pages 205-216
  12. Back Matter

    Pages 217-223

About this book

In the early years of microarray technology, efforts were directed mainly at profiling expressed genes, while recently the microarray platform has been adapted into diverse applications directed toward the investigation of the physical genome. In Microarray Analysis of the Physical Genome: Methods and Protocols, experts in the field cover DNA microarray applications for the detection and characterization of genomic DNA-associated copy number alteration, loss of heterozygosity (LOH), cytosine methylation, protein binding sites, regulatory elements, and replication timing, with an emphasis on higher eukaryote (animal) and cancer genomes. Written in the highly successful Methods in Molecular Biologyâ„¢ series format, chapters include a brief introduction to their respective subjects, lists of the necessary materials and reagents, step-by-step protocols, and time-saving notes on troubleshooting and avoiding known pitfalls.

Authoritative and easy-to-use, Microarray Analysis of the Physical Genome: Methods and Protocols is of great value to the molecular biologist or computational biologist interested in understanding the principles of these analyses or in planning future experiments using microarrays to characterize the physical genome.

Bibliographic Information

  • Book Title: Microarray Analysis of the Physical Genome

  • Book Subtitle: Methods and Protocols

  • Editors: Jonathan R. Pollack

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-60327-192-9

  • Publisher: Humana Totowa, NJ

  • eBook Packages: Springer Protocols

  • Copyright Information: Humana Press 2009

  • Hardcover ISBN: 978-1-60327-191-2Published: 21 July 2009

  • Softcover ISBN: 978-1-61779-490-2Published: 06 December 2011

  • eBook ISBN: 978-1-60327-192-9Published: 02 June 2009

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: X, 224

  • Number of Illustrations: 36 b/w illustrations

  • Topics: Biochemistry, general, Human Genetics, Microarrays

Buy it now

Buying options

eBook USD 84.99
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book USD 159.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book USD 109.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Other ways to access