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Pharmacogenomics

Methods and Protocols

  • Book
  • © 2005

Overview

Editors:
  1. Federico Innocenti

    1. Committee on Clinical Pharmacology and Pharmacogenomics, Section of Hematology/Oncology, Department of Medicine, University of Chicago, Chicago

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Part of the book series: Methods in Molecular Biology (MIMB, volume 311)

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About this book

Expert researchers and physician/clinicians describe in detail the newest and most commonly used technologies today in this rapidly advancing field. The authors provide readily reproducible methods for assessing the functional consequences of a certain polymorphism, evaluate the variety of genoty** platforms currently available, and discuss the management of pharmacogenomic information. Highlights include techniques for making a snapshot of the allele-specific variation in human gene expression, genome wide analysis of allele-specific expression using oligo microarrays, in vivo assays with HaploChIP, SNP genoty** in DNA pools, and PharmGKB, the pharmacogenetics and pharmacogenomics knowledge base. The methodologies for genoty** include denaturing high-performance liquid chromarography, pyrosequencing, kinetic-fluorescence detection, mass spectrometry, and TaqMan assay for insertion/deletions.

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Table of contents (15 protocols)

  1. Front Matter

    Pages i-x
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  2. History and Overview

    1. Front Matter

      Pages 1-1
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    2. Pharmacogenomics

      • Werner Kalow
      Pages 3-15

  3. Functional Analysis of Gene Variation

    1. Front Matter

      Pages 17-17
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    2. Transfection Assays With Allele-Specific Constructs

      • Hideto **no, Nobumitsu Hanioka, Toshiko Tanaka-Kagawa, Yoshiro Saito, Jun-ichi Sawada, Shogo Ozawa
      Pages 19-29

    3. Snapshot of the Allele-Specific Variation in Human Gene Expression

      • Hai Yan
      Pages 31-38

    4. Genome-Wide Analysis of Allele-Specific Gene Expression Using Oligo Microarrays

      • Maxwell P. Lee
      Pages 39-47

    5. HaploChIP

      • Julian Charles Knight
      Pages 49-60

  4. Genoty** Techniques

    1. Front Matter

      Pages 61-61
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    2. Aspects Influencing Genoty** Method Selection

      • Peter Imle
      Pages 63-72

    3. Denaturing High-Performance Liquid Chromatography for Mutation Detection and Genoty**

      • Donna Lee Fackenthal, Pei **an Chen, Soma Das
      Pages 73-96

    4. Pyrosequencing of Clinically Relevant Polymorphisms

      • Sharon Marsh, Cristi R. King, Adam A. Garsa, Howard L. McLeod
      Pages 97-114

    5. Kinetic Fluorescence-Quenching Detection Assay for Allele Frequency Estimation

      • Ming **ao, Pui-Yan Kwok
      Pages 115-123

    6. Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry

      • Matthias Wjst, Dirk van den Boom
      Pages 125-137

    7. Fluorescence-Based Fragment Size Analysis

      • Peter Imle
      Pages 139-146

    8. Single-Nucleotide Polymorphism Genoty** in DNA Pools

      • Ian Craig, Emma Meaburn, Lee Butcher, Linzy Hill, Robert Plomin
      Pages 147-164

    9. TaqMan Genoty** of Insertion/Deletion Polymorphisms

      • Renato Robledo, William R. Beggs, Patrick K. Bender
      Pages 165-176

  5. Management of Pharmacogenomic Information

    1. Front Matter

      Pages 177-177
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    2. PharmGKB

      • Caroline F. Thorn, Teri E. Klein, Russ B. Altman
      Pages 179-191

    3. Systems for the Management of Pharmacogenomic Information

      • Alexander Sturn, Michael Maurer, Robert Molidor, Zlatko Trajanoski
      Pages 193-208
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Editors and Affiliations

  • Committee on Clinical Pharmacology and Pharmacogenomics, Section of Hematology/Oncology, Department of Medicine, University of Chicago, Chicago

    Federico Innocenti

Bibliographic Information

  • Book Title: Pharmacogenomics

  • Book Subtitle: Methods and Protocols

  • Editors: Federico Innocenti

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1385/1592599575

  • Publisher: Humana Totowa, NJ

  • eBook Packages: Springer Protocols

  • Copyright Information: Humana Press 2005

  • Hardcover ISBN: 978-1-58829-440-1Published: 15 August 2005

  • Softcover ISBN: 978-1-61737-571-2Published: 19 November 2010

  • eBook ISBN: 978-1-59259-957-8Published: 03 February 2008

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: X, 214

  • Topics: Pharmacy

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