DNA Arrays

DNA Arrays
Author: Jang B. Rampal
Publisher: Springer Science & Business Media
Total Pages: 268
Release: 2008-02-02
Genre: Science
ISBN: 1592592341

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 .

Design and Analysis of DNA Microarray Investigations

Design and Analysis of DNA Microarray Investigations
Author: Richard M. Simon
Publisher: Springer Science & Business Media
Total Pages: 205
Release: 2006-05-09
Genre: Medical
ISBN: 0387218661

The analysis of gene expression profile data from DNA micorarray studies are discussed in this book. It provides a review of available methods and presents it in a manner that is intelligible to biologists. It offers an understanding of the design and analysis of experiments utilizing microarrays to benefit scientists. It includes an Appendix tutorial on the use of BRB-ArrayTools and step by step analyses of several major datasets using this software which is available from the National Cancer Institute.

Exploration and Analysis of DNA Microarray and Protein Array Data

Exploration and Analysis of DNA Microarray and Protein Array Data
Author: Dhammika Amaratunga
Publisher: John Wiley & Sons
Total Pages: 270
Release: 2009-09-25
Genre: Mathematics
ISBN: 0470317965

A cutting-edge guide to the analysis of DNA microarray data Genomics is one of the major scientific revolutions of this century, and the use of microarrays to rapidly analyze numerous DNA samples has enabled scientists to make sense of mountains of genomic data through statistical analysis. Today, microarrays are being used in biomedical research to study such vital areas as a drug’s therapeutic value–or toxicity–and cancer-spreading patterns of gene activity. Exploration and Analysis of DNA Microarray and Protein Array Data answers the need for a comprehensive, cutting-edge overview of this important and emerging field. The authors, seasoned researchers with extensive experience in both industry and academia, effectively outline all phases of this revolutionary analytical technique, from the preprocessing to the analysis stage. Highlights of the text include: A review of basic molecular biology, followed by an introduction to microarrays and their preparation Chapters on processing scanned images and preprocessing microarray data Methods for identifying differentially expressed genes in comparative microarray experiments Discussions of gene and sample clustering and class prediction Extension of analysis methods to protein array data Numerous exercises for self-study as well as data sets and a useful collection of computational tools on the authors’ Web site make this important text a valuable resource for both students and professionals in the field.

DNA Microarrays, Part B: Databases and Statistics

DNA Microarrays, Part B: Databases and Statistics
Author:
Publisher: Academic Press
Total Pages: 512
Release: 2006-09-11
Genre: Science
ISBN: 9780121828165

Modern DNA microarray technologies have evolved over the past 25 years to the point where it is now possible to take many million measurements from a single experiment. These two volumes, Parts A & B in the Methods in Enzymology series provide methods that will shepard any molecular biologist through the process of planning, performing, and publishing microarray results. Part A starts with an overview of a number of microarray platforms, both commercial and academically produced and includes wet bench protocols for performing traditional expression analysis and derivative techniques such as detection of transcription factor occupancy and chromatin status. Wet-bench protocols and troubleshooting techniques continue into Part B. These techniques are well rooted in traditional molecular biology and while they require traditional care, a researcher that can reproducibly generate beautiful Northern or Southern blots should have no difficulty generating beautiful array hybridizations. Data management is a more recent problem for most biologists. The bulk of Part B provides a range of techniques for data handling. This includes critical issues, from normalization within and between arrays, to uploading your results to the public repositories for array data, and how to integrate data from multiple sources. There are chapters in Part B for both the debutant and the expert bioinformatician. Provides an overview of platforms Includes experimental design and wet bench protocols Presents statistical and data analysis methods, array databases, data visualization and meta analysis

DNA Microarrays and Gene Expression

DNA Microarrays and Gene Expression
Author: Pierre Baldi
Publisher:
Total Pages: 213
Release: 2002
Genre: DNA microarrays
ISBN: 9780511071676

DNA microarrays are revolutionizing biology and medicine. They can provide a snapshot of the level of gene expression in a cell and are therefore a powerful tool with which to study biological phenomena at the molecular level. This inter-disciplinary introduction will be essential reading for researchers of all disciplines.

DNA Microarrays

DNA Microarrays
Author: David Bowtell
Publisher:
Total Pages: 744
Release: 2003
Genre: Medical
ISBN:

DNA microarray technology is a new and powerful means to analyze genomes and characterize patterns of gene expression. Its applications are widespread across the many fields of plant and animal biological and biomedical research. This manual, designed to extend and to complement the information in the best–selling Molecular Cloning,is a synthesis of the expertise and experience of more than 30 contributors—all innovators in a fast–moving field. DNA Microarraysprovides authoritative, detailed instruction on the design, construction, and applications of microarrays, as well as comprehensive descriptions of the software tools and strategies required for analysis of images and data.

Microarray Bioinformatics

Microarray Bioinformatics
Author: Dov Stekel
Publisher: Cambridge University Press
Total Pages: 296
Release: 2003-09-08
Genre: Medical
ISBN: 9780521525879

This book is a comprehensive guide to all of the mathematics, statistics and computing you will need to successfully operate DNA microarray experiments. It is written for researchers, clinicians, laboratory heads and managers, from both biology and bioinformatics backgrounds, who work with, or who intend to work with microarrays. The book covers all aspects of microarray bioinformatics, giving you the tools to design arrays and experiments, to analyze your data, and to share your results with your organisation or with the international community. There are chapters covering sequence databases, oligonucleotide design, experimental design, image processing, normalisation, identifying differentially expressed genes, clustering, classification and data standards. The book is based on the highly successful Microarray Bioinformatics course at Oxford University, and therefore is ideally suited for teaching the subject at postgraduate or professional level.

DNA Microarrays

DNA Microarrays
Author: Mark Schena
Publisher: Practical Approach Series
Total Pages: 236
Release: 1999
Genre: Medical
ISBN: 9780199637768

DNA Microarrays: A Practical Approach is the first comprehensive overview of an exciting and powerful new technology. DNA microarrays, or biochips, are small glass chips embedded with ordered rows of DNA, providing a massive parallel platform for data gathering and representing a fundamental technical advance in biomedical research. Such biochips gather data at an unprecedented rate by enabling the use of advanced fabrication, detection, and data mining technologies. Written and edited by experts in the field, this book provides fascinating insight into this remarkable advancement. It opens with an introduction to the technology of DNA microarrays, emphasizing the methodological fundamentals of biochips, and continues with descriptions of the use of confocal scanning in microarray detection and techniques for the efficient cloning and screening of differentially expressed genes. The chapters address many topics, among them assay optimization, antisense scanning arrays, the manufacture of molecular arrays, and gene expression analysis. Also addressed are the uses of expression data in bioinformatics, of active microelectronic arrays for DNA hybridization analysis, and of microarray technology in pharmacogenomics. DNA Microarrays: A Practical Approach is ideal for researchers investigating patterns of gene expression (and the relationship with disease), and it is essential for any researcher interested in the use of biochips.

A Beginner’s Guide to Microarrays

A Beginner’s Guide to Microarrays
Author: Eric M. Blalock
Publisher: Springer Science & Business Media
Total Pages: 356
Release: 2011-06-27
Genre: Science
ISBN: 1441987606

A Beginner's Guide to Microarrays addresses two audiences - the core facility manager who produces, hybridizes, and scans arrays, and the basic research scientist who will be performing the analysis and interpreting the results. User friendly coverage and detailed protocols are provided for the technical steps and procedures involved in many facets of microarray technology, including: -Cleaning and coating glass slides, -Designing oligonucleotide probes, -Constructing arrays for the detection and quantification of different bacterial species, -Preparing spotting solutions, -Troubleshooting spotting problems, -Setting up and running a core facility, -Normalizing background signal and controlling for systematic variance, -Designing experiments for maximum effect, -Analyzing data with statistical procedures, -Clustering data with machine-learning protocols.

Functional Genomics

Functional Genomics
Author: Chris Town
Publisher: Springer Science & Business Media
Total Pages: 222
Release: 2002-04-30
Genre: Computers
ISBN: 9781402004568

This volume provides an overview of the current state of plant genomics using a number of different approaches at a time when we celebrate the completion of the Arabidopsis genome sequence and begin the transition from structural to functional studies of this and other plant genomes. Topics covered include comparative genomics, computational approaches to gene identification and annotation and data management, high throughput methodologies for functional analysis at the levels of transcript, protein and metabolite, and methods for genome modification by both homologous and site-specific recombination. The book will provide a good introduction to some of the many aspects of genomics both for established plant biologists who wish to understand this rapidly developing area and for scientists early in their careers. It is also very suitable for a one-semester course in Plant Genomics at the upper-level undergraduate/graduate student level, where the individual chapters provide a framework that can be readily expanded by use of some of the many articles in the bibliographies.