DNA Microarrays - A Practical Approach

DNA microarrays, or biochips, are small glass chips embedded with ordered rows of DNA and by providing a massive parallel platform for data gathering represent a fundamental technical advance in biomedical research. Such biochips enable the use of advanced fabrication, detection, and data mining technologies that allow data gathering at an unprecedented rate. The first chapter is an introduction to the technology of DNA microarrays, emphasizing the methodological fundamentals of biochips. The next two chapters describe the use of confocal scanning in microarray detection and techniques for the efficient cloning and screening of differentially expressed genes. Chapter 4 describes assay optimization for enzymatic assays and chapter 5 antisense scanning arrays. This is followed by a chapter on the manufacture of molecular arrays using ink-jet printing technology. Chapter 7 describes gene expression analysis from cDNA microarrays and then chapter 8 covers the use of expression data in bioinformatics. Chapter 9 describes the use of active microelectronic arrays for DNA hybridization analysis and the last chapter details the use of microarray technology in pharmacogenomics. This Practical Approach book is a comprehensive overview of the new and expanding field of DNA microarray technology and will be invaluable to any researcher interested in the use of biochips.

Sommario

• 1: Mark Schena and Ronald W. Davis: Genes, genomes, and chips: Introduction; Information content of genomes; microarray analysis; Applications of microarrays; Chips and pharmacogenomics; Summary; References


• 2: Mack J. Schermer: Confocal scanning microscopy in microarray detection: Introduction - microarrays, fluorescence, and detection; Sample handling; Confocal scanning of microarrays; Wavelength discrimination - minimizing the background image; Detectors; Signal processing and instrument control; Instrument performance measures; Scanarray (registered trademark) confoccal microarray scanners; References


• 3: Stanley F. Nelson and Christopher T. Denny: Representational differences analysis and microarray hybridization for efficient cloning and screening of differentially expressed genes: Introduction; RDA; Generation of libraries from RDA subtractions; Microarray fabrication; microarray hybridization; Differential expression screening with microarrays; Summary; References


• 4: Stephen Case-Green, Clare Pritchard, and Edwin M. Southern: Use of oligonucleotide arrays in enzymatic assays: assay optimization: Introduction; Fabrication of arrays; Preparation of target DNA; Hybridization to arrays; Enzyme catalysed extension reactions; Variations on protocols; References


• 5: John K. Elder, Martin Johnson, Natalie Milner, Kalim U. Mir, Muhammad Sohail, and Edwin M. Southern: Antisense oligonucleotide scanning arrays: Introduction; Array fabrication; Acknowledgements; References


• 6: Thomas P. Theriault, Scott C, Winder, and Ronald C, Gamble: Application of ink-jet printing technology to the manufacture of molecular arrays: Introduction; Ink-jet technology; Molecular array fabrication by synthesis; Molecular array fabrication by deposition; Conclusion; Acknowledgements; References


• 7: Ranelle C. Salunga, Hongqing Guo, Lin Luo, Anton Bittner, K. C. Joy, Jim R. Chambers, Jackson S. Wan, Michael R. Jackson, and Mark G. Erlander: Gene expression analysis via cDNA microarrays of laser capture microdissected cells from fixed tissue: Ranelle C. Salunga, Hongqing Guo, Lin Luo, Anton Bittner, K. C. Joy, Jim R. Chambers, Jackson S. Wan, Michael R. Jackson, and Mark G. Erlander: Introduction; Laser capture microdissection; Generation of aRNA - first round; cDNA microarrays; Acknowledgements; References


• 8: Joel Lloyd Bellenson: Expression data and the bioinformatics challenges: Genes/proteins; The raw data pipeline; The reference data warehouse; The structure of molecular information; Medial lexicon and donor sample registration; Data mining an expression data mart; Conclusions; References


• 9: Michael J. Heller, Eugene Tu, Anita Holmsen, Ronald G. Sosnowski, and James O'Connell: Active microelectronic arrays for DNA hybridization analysis: Introduction; Background on electronic array and hybridization technology; Active microelectronics array fabrication; Point mutation analysis on active electronic arrays; Microfabrication of active DNA chips; Example of single base discrimination analysis; Conclusions; References


• 10: Renu A. Heller, John Allard, Fengrong Zuo, Christopher Lock, Stacy Wilson, Paul Klonowski, Hans Gmuender, Harold Van Wart, and Robert Booth: Gene chips and microarrays: applications in disease profiles, drug target discovery, drug action and toxicity: Introduction; Methods; Results; Discussion; Acknowledgements; References


• Appendix


• Index

Info autore

MARK SCHENA, Ph.D., the "Father of Microarray Technology," trained with Dan Koshland at U.C. Berkeley, Keith Yamamoto at UCSF, and Ron Davis at Stanford University. He published the first paper on microarrays in Science in 1995, and has given more than 80 lectures in 15 countries since 1995. Dr. Schena was featured as one of the Stars of Genomics on the 2001 NOVA television documentary on the Human Genome Project, and is currently a visiting scholar at TeleChem/arrayit.com in Sunnyvale, California.

Riassunto

DNA microarrays, or biochips, are small glass chips embedded with ordered rows of DNA and by providing a massive parallel platform for data gathering represent a fundamental technical advance in biomedical research. Such biochips enable the use of advanced fabrication, detection, and data mining technologies that allow data gathering at an unprecedented rate. The first chapter is an introduction to the technology of DNA microarrays, emphasizing the methodological fundamentals of biochips. The next two chapters describe the use of confocal scanning in microarray detection and techniques for the efficient cloning and screening of differentially expressed genes. Chapter 4 describes assay optimization for enzymatic assays and chapter 5 antisense scanning arrays. This is followed by a chapter on the manufacture of molecular arrays using ink-jet printing technology. Chapter 7 describes gene expression analysis from cDNA microarrays and then chapter 8 covers the use of expression data in bioinformatics. Chapter 9 describes the use of active microelectronic arrays for DNA hybridization analysis and the last chapter details the use of microarray technology in pharmacogenomics. This Practical Approach book is a comprehensive overview of the new and expanding field of DNA microarray technology and will be invaluable to any researcher interested in the use of biochips.

Testo aggiuntivo

'...it's an essential purchase and probably the cheapest one a microarraying lab will make' Microbiology Today

Relazione

'...With its well-laid out protocols, the book manages to instruct the reader well and should be accessible to both novice and expert molecular biologists alike' Aslib Book Guide

Dettagli sul prodotto

• Autori: Mark Schena
• Con la collaborazione di: Mark Schena (Editore), Mark (Department of Biochemistry Schena (Editore), Schena Mark (Editore)
• Editore: Oxford University Press
• Lingue: Inglese
• Formato: Tascabile
• Pubblicazione: 01.01.1999
• EAN: 9780199637768
• ISBN: 978-0-19-963776-8
• Pagine: 232
• Peso: 414 g
• Illustrazioni: 10 colour plates, 12 halftones, 35 line illustrations
• Serie: Practical Approach Series; Practical Approach Series; Practical Approach
• Categorie: Scienze naturali, medicina, informatica, tecnica > Biologia > Genetica, tecnica genetica; Medical research, SCIENCE / Life Sciences / Biology, SCIENCE / Life Sciences / Molecular Biology, SCIENCE / Life Sciences / Genetics & Genomics, MEDICAL / Research, MEDICAL / Education & Training, molecular biology, Genetic Engineering, Human biology, Pre-clinical medicine: basic sciences, Parallel processing, COMPUTERS / Parallel Processing