Synopses & Reviews
Microarray technology, which permits the rapid, simultaneous, and highly sensitive analysis of large numbers of biological samples, is now coming into widespread use for advanced research on gene expression, mutation analysis, proteomics, and gene sequencing. In DNA Arrays: Methods and Protocols, Jang Rampal and a authoritative panel of researchers, engineers, and technologists explain in detail how to design and construct these DNA arrays, as well as how to hybridize them with biological samples for analysis. In step-by-step instructions these experts detail not only how to attach or print arrays on various matrices, but also biological sample preparation (DNA and RNA), hybridization conditions, signal detection, probe optimization, different printing technologies, and data collection and analysis (bioinformatics). Additional topics covered include genotyping, sequencing by hybridization, antisense reagents, HLA-DQA typing techniques, and gene expression analysis. Rounding out the technical presentation are three chapters that review the history of microarrays, the ethical ramifications of genetic analysis using DNA arrays, and the business aspects of biochip technologies. Forward-looking and state-of-the-art, DNA Arrays: Methods and Protocols provides all investigators engaged in biological and biomedical research the full range of effective, readily reproducible microarray techniques needed today to analyze on a large scale the many different genes and gene sequences now available from the Human Genome Project.
Review
"DNA Arrays - Methods and Protocols presents microarray technology as an extremely useful tool to better understand modern molecular biology, particularly DNA sequencing, gene expression, genetic mutation and polymorphism. ... The main focus is on a very detailed presentation of the available methods in microarray technology. Experiments are explained carefully and systematic attention is paid to possible variations and particular difficulties that may arise. ...Useful tips are offered: as to how to perform direct comparisons of gene-expression patterns between two tissues or two different experimental condition... this book will surely be viewed as one that represented a stepping stone into development of the technique."- Department of Chemistry, University of Toronto "DNA Arrays: Methods and Protocols is both a useful introduction to DNA microarray technology as well as a handy source of protocols for specific applications of the technique. The book covers a broad range of topics related to DNA microarrays beginning of DNA arrays to the analysis of the data that is produced....This book offers many practical insights into DNA microarray analysis that should prove to be useful to scientists interested in implementing this technique in their research....the reader should be able to easily follow the progression of the material through the different stages one would need to perform to design a microarray experiment. This book will be of interest for those readers seeking practical information about DNA array methodologies." - Biotech Software & Internet Report "...of interest to postgraduate students and postdoctoral researchers who have begun work on DNA arrays and need a broader view of the field, together with useful tips for solving practical problems." - Angewente Chemie International "DNA Arrays-Methods and Protocols presents microarray technology as an extremely useful tool to better understand modern molecular biology, particularly DNA sequencing, gene expression, genetic mutation and polymorphism." -The Analyst "...a comprehensive guide to DNA microarrays...provides a starting point where one can begin to tackle the vast amount of new literature on the subject." -The National Journal of India
Synopsis
Microarray technology provides a highly sensitive and precise te- nique for obtaining information from biological samples, with the added advantage that it can handle a large number of samples simultaneously that may be analyzed rapidly. Researchers are applying microarray technology to understand gene expression, mutation analysis, and the sequencing of genes. Although this technology has been experimental, and thus has been through feasibility studies, it has just recently entered into widespread use for advanced research. The purpose of DNA Arrays: Methods and Protocols is to provide instruction in designing and constructing DNA arrays, as well as hybridizing them with biological samples for analysis. An additional purpose is to p- vide the reader with a broad description of DNA-based array technology and its potential applications. This volume also covers the history of DNA arrays--from their conception to their ready off-the-shelf availability--for readers who are new to array technology as well as those who are well versed in this field. Stepwise, detailed experimental procedures are described for constructing DNA arrays, including the choice of solid support, attachment methods, and the general conditions for hybridization. With microarray technology, ordered arrays of oligonucleotides or other DNA sequences are attached or printed to the solid support using au- mated methods for array synthesis. Probe sequences are selected in such a way that they have the appropriate sequence length, site of mutation, and T .
Synopsis
In DNA Arrays: Methods and Protocols, Jang Rampal and a authoritative panel of researchers, engineers, and technologists explain in detail how to design and construct DNA microarrays, as well as how to hybridize them with biological samples for analysis. In step-by-step instructions, these experts detail not only how to attach or print arrays on various matrices, but also biological sample preparation (DNA and RNA), hybridization conditions, signal detection, probe optimization, different printing technologies, and data collection and analysis (bioinformatics). Additional topics covered include genotyping, sequencing by hybridization, antisense reagents, HLA-DQA typing techniques, and gene expression analysis. Forward-looking and state-of-the-art, DNA Arrays: Methods and Protocols provides all investigators engaged in biological and biomedical research the full range of effective, readily reproducible microarray techniques needed to analyze on a large scale the many different genes and gene sequences now available from the Human Genome Project.
Table of Contents
DNA Microarrays: History and Overview Edwin M. Southern Gel-Immobilized Microarrays of Nucleic Acids and Proteins: Production and Application for Macromolecular Research Jordanka Zlatanova and Andrei Mirzabekov Sequencing by Hybridization Arrays Radoje Drmanac and Snezana Drmanac Ethical Ramifications of Genetic Analysis Using DNA Arrays Wayne W. Grody Photolithographic Synthesis of High-Density Oligonucleotide Arrays Glenn H. McGall and Jacqueline A. Fidanza Automated Genotyping Using the DNA MassArrayTM Technology Christian Jurinke, Dirk van den Boom, Charles R. Cantor, and Hubert Köster Ink-Jet-Deposited Microspot Arrays of DNA and Other Bioactive Molecules Patrick Cooley, Debra Hinson, Hans-Jochen Trost, Bogdan Antohe, and David Wallace Printing DNA Microarrays Using the Biomek® 2000 Laboratory Automation Workstation David W. Galbraith, Jirí Macas, Elizabeth A. Pierson, Wenying Xu, and Marcela Nouzová Hybridization Analysis of Labeled RNA by Oligonucleotide Arrays Ulrich Certa, Antoine de Saizieu, and Jan Mous Analysis of Nucleic Acids by Tandem Hybridization on Oligonucleotide Microarrays Rogelio Maldonado-Rodriguez and Kenneth L. Beattie DNA Sequencing by Hybridization with Arrays of Samples or Probes Radoje Drmanac, Snezana Drmanac, Joerg Baier, Gloria Chui, Dan Coleman, Robert Diaz, Darryl Gietzen, Aaron Hou, Hui Jin, Tatjana Ukrainczyk, and Chongjun Xu Using Oligonucleotide Scanning Arrays to Find Effective Antisense Reagents Muhammad Sohail and Edwin M. Southern Low-Resolution Typing of HLA-DQA1 Using DNA Microarray Sarah H. Haddock, Christine Quartararo, Patr ick Cooley, and Dat D. Dao Gene Expression Analysis on Medium-Density Oligonucleotide Arrays Ralph Sinibaldi, Catherine O'Connell, Chris Seidel, and Henry Rodriguez Use of Bioinformatics in Arrays Peter Kalocsai and Soheil Shams Confocal Scanning of Genetic Microarrays Arthur E. Dixon and Savvas Damaskinos Business Aspects of Biochip Technologies Kenneth E. Rubenstein