Differential Display Methods and Protocols
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Differential Display Methods and Protocols

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Since the first edition of this book dedicated to differential display (DD) technology was published in 1997, we have witnessed an explosive interest in studying differential gene expression. The gene-hunting euphoria was initially powered by the invention of DD, which was gradually overtaken by DNA microarray technology in recent years. Then why is there still the need for second edition of this DD book? First of all, DD still enjoys a substantial lead over DNA microarrays in the ISI citation data (see Table 1), despite the h- dreds of millions of dollars spent each year on arrays. This may come as a surprise to many, but to us it implies that many of the DNA microarray studies went unpublished owing to their unfulfilled promises (1). Second, unlike DNA microarrays, DD is an "open"-ended gene discovery method that does not depend on prior genome sequence information of the organism being studied. As such, DD is applicable to the study of all living organisms-from bacteria, fungi, insects, fish, plants, to mammals-even when their genomes are not sequenced. Second, DD is more accessible technically and financially to most cost-conscious "cottage-industry" academic laboratories. So clearly DD still has its unique place in the modern molecular biological toolbox for gene expression analysis.show more

Product details

  • Hardback | 320 pages
  • 158 x 234 x 28mm | 680.4g
  • Humana Press Inc.
  • Totowa, NJ, United States
  • English
  • Revised
  • 2nd ed. 2006
  • 131 black & white illustrations, 1 colour illustrations, biography
  • 1588293386
  • 9781588293381

Back cover copy

Carrying on the high standards of the first edition of Differential Display Methods, Peng Liang et al. have based their second edition on a new mathematical model of differential display (DD) that takes advantage of automation, as well as digital data acquisition and analysis. These well-versed authors explain and highlight all the recent methodological refinements, including automated liquid handling of hundreds of DD PCR reaction setups combined with capillary electrophoresis, a prototype computer program to automatically allow positive band identification from a fluorescence differential display image, and restriction fragment-based DD screenings that can link any cDNA fragment directly to a given gene once the sequence information of all transcripts becomes available. Other improvements discussed are combining DD and DNA microarrays by reducing the complexity of cDNA probes while increasing the sensitivity of detection, and a DD approach to detect prokaryotic mRNA expression. The authors also demonstrate the power of DD technology with a collection of outstanding examples of DD applications and detailed experimental procedures. The elegant studies described here have led to the discovery of many important genes involved in viral infection, Prion disease, cancer, ovulation, circadian clock, floral color, transcription repression gene silencing, mRNA polymorphism, and protein-RNA interaction. State-of-the-art and highly practical, Differential Display Methods, Second Edition offers gene hunters the possibility of genome-wide comprehensive DD screening, as well as a proven road map for any successful "gene fishing" expedition.show more

Review quote

"The variety of applications...is so broad that almost every newcomer...can use these protocols as a starting point for a specific study...highly recommended for purchase by everyone interested in the comparative gene expression, and especially to newcomers to the field." -Trends in Biotechnology From Reviews of the First Edition... "...really helpful for all geneticists and cellular and molecular biologists...a precious book which should be in all hands!" -Cellular and Molecular Biology "...For any would-be gene hunter thinking of or already practicing differential display, this book will provide an invaluable and long overdue guide to the technique." -Molecular Medicine "...an ideal resource for any research group interested in using DD." -Microbiology Today "...highly recommend[ed]...for purchase by everyone interested in the comparative gene expression,, and especially to newcomers to the field." -Trends in Biotechnologyshow more

Table of contents

Part I. Methodologies Global Analysis of Gene Expression by Differential Display: A Mathematical Model Shitao Yang and Peng Liang Automation of Fluorescent Differential Display With Digital Readout Jonathan D. Meade, Yong-jig Cho, Jeffrey S. Fisher, Jamie C. Walden, Zhen Guo, and Peng Liang Ordered Differential Display Mikhail V. Matz and Ella A. Meleshkevitch GeneCalling(R): Transcript Profiling Coupled to a Gene Database Query Richard A. Shimkets High-Density Sampling Differential Display of Prokaryotic mRNAs With RAP-PCR Dana M. Walters and Pierre E. Rouviere Vertical Arrays: Microarrays of Complex Mixtures of Nucleic Acids Rosana Risques, Gaelle Rondeau, Martin Judex, Michael McClelland, and John Welsh Automated Pattern Ranking in Differential Display Data Analysis Tero Aittokallio, Pekka Ojala, Timo J. Nevalainen, and Olli S. Nevalainen Linking cDNA-AFLP-Based Gene Expression Patterns and ESTs Ling Qin, Pjotr Prins, and Johannes Helder Part II. Applications Differentially Expressed Genes Associated With Hepatitis B Virus HBx and MHBs Protein Function in Hepatocellular Carcinoma Dae-Ghon Kim Identification of Disease Markers by Differential Display: Prion Disease Michael Clinton, Gino Miele, Sunil Nandi, and Derek McBride Saturation Screening for p53 Target Genes by Digital Fluorescent Differential Display Yong-Jig Cho, Susanne Stein, Roger S. Jackson II, and Peng Liang Identification of p53-Regulated Genes by the Method of Differential Display Yunping Lin, Roger P. Leng, and Samuel Benchimol Identification by Differential Display of IL-24 Autocrine Loop Activated by Ras Oncogenes Zhongjia Tan, Mai Wang, and Peng Liang Comprehensive Analysis of Ovarian Gene Expression During Ovulation Using Differential Display Lawrence L.Espey Functional Analysis of Nocturnin: A Circadian Clock-Regulated Gene Identified by Differential Display Julie E. Baggs and Carla B. Green Isolation and Characterization of Anthocyanin 5-O-Glucosyltransferase in Perilla frutescens var. crispa by Differential Display Mami Yamazaki and Kazuki Saito Identification of Target Genes of a Yeast Transcriptional Repressor Bernard Mai and Linda L. Breeden Detection of an mRNA Polymorphism by Differential Display Shan Liang, S. Paul Rossby, Peng Liang, Richard C. Shelton, D. Hal Manier, Amitabha Chakrabarti, and Fridolin Sulser Silencing in Yeast: Identification of Clr4 Targets Sergey V. Ivanov and Alla V. Ivanova Identification of mRNA Bound to RNA Binding Proteins by Differential Display Anne Carr-Schmid, Xinfu Jiao, and Megerditch Kiledjian Indexshow more