Related books on 'microarray'
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by: W. Chen publisher: Elsevier, published: 2006-03-30 ASIN: B000PBZYXC This digital document is a journal article from Analytica Chimica Acta, published by Elsevier in 2006. The article is delivered in HTML format and is available in your Amazon.com Media Library immediately after purchase. You can view it with any web browser. Description: Over the past few years, tissue microarray (TMA) technology has been established as a standard method for assessing the expression of proteins or genes across large sets of tissue specimens. It is being adopted increasingly among leading research institutions around the world and utilized in cancer research in parallel with the cDNA microarray technology. This article summarizes various aspects of cancer understanding and diagnostics in which TMA has had great impact. Although tremendous advances continue to be made to facilitate imaging and archiving of TMA specimens, automatic evaluation and quantitative analysis of TMA still remains an important challenge for modern investigators. |
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by: E.J. Cho publisher: Elsevier, published: 2006-03-30 ASIN: B000PBZYXM This digital document is a journal article from Analytica Chimica Acta, published by Elsevier in 2006. The article is delivered in HTML format and is available in your Amazon.com Media Library immediately after purchase. You can view it with any web browser. Description: Aptamer-based microarrays for the quantitation of multiple protein analytes have been developed. A multiplex aptamer microarray was generated by printing two RNA aptamers (anti-lysozyme and anti-ricin) and two DNA aptamers (anti-IgE and anti-thrombin) on to either streptavidin (SA) or neutravidin (NA)-coated glass slides. However, substantial optimization was required in order to ensure the simultaneous function of the aptamer:analyte pairs. The effects of protein labeling, assay buffer, surface coating, and immobilization chemistry and orientation were investigated. A single buffer (PBS buffer containing 5mM MgCl"2 and 0.1% Tween 20) was found to work well with all the aptamers, even though this was not the buffer originally used in their selection, while neutravidin-coated slides yielded a lower detection limit, wider detection range, and more uniform background than streptavidin-coated slides. Incubation with Cy3-labeled proteins yielded sensitive, target-specific, and dose-dependent responses to each protein. Target protein concentrations as low as 72pg/mL (5pM, lysozyme), 15ng/mL (0.5nM, ricin), 1.9ng/mL (0.01nM, IgE), and 170ng/mL (5nM, thrombin) could be detected. These results show that aptamer arrays can potentially be used with numerous proteins in parallel, furthering the notion that aptamer arrays may be useful in proteomics. |
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by: Z. Ju publisher: Elsevier, published: 2007-02-01 ASIN: B000PDT85A This digital document is a journal article from Comparative Biochemistry and Physiology, Part C, published by Elsevier in 2007. The article is delivered in HTML format and is available in your Amazon.com Media Library immediately after purchase. You can view it with any web browser. Description: Toxicogenomics represents the merging of toxicology with genomics and bioinformatics to investigate biological functions of genome in response to environmental contaminants. Aquatic species have traditionally been used as models in toxicology to characterize the actions of environmental stresses. Recent completion of the DNA sequencing for several fish species has spurred the development of DNA microarrays allowing investigators access to toxicogenomic approaches. However, since microarray technology is thus far limited to only a few aquatic species and derivation of biological meaning from microarray data is highly dependent on statistical arguments, the full potential of microarray in aquatic species research has yet to be realized. Herein we review some of the issues related to construction, probe design, statistical and bioinformatical data analyses, and current applications of DNA microarrays. As a model a recently developed medaka (Oryzias latipes) oligonucleotide microarray was described to highlight some of the issues related to array technology and its application in aquatic species exposed to hypoxia. Although there are known non-biological variations present in microarray data, it remains unquestionable that array technology will have a great impact on aquatic toxicology. Microarray applications in aquatic toxicogenomics will range from the discovery of diagnostic biomarkers, to establishment of stress-specific signatures and molecular pathways hallmarking the adaptation to new environmental conditions. |
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by: Isaac S. Kohane publisher: A Bradford Book, published: 2005-08-12 ASIN: B007PM1NN4 sales rank: 1021852 Functional genomics--the deconstruction of the genome to determine the biological function of genes and gene interactions--is one of the most fruitful new areas of biology. The growing use of DNA microarrays allows researchers to assess the expression of tens of thousands of genes at a time. This quantitative change has led to qualitative progress in our ability to understand regulatory processes at the cellular level.This book provides a systematic introduction to the use of DNA microarrays as an investigative tool for functional genomics. The presentation is appropriate for readers from biology or bioinformatics. After presenting a framework for the design of microarray-driven functional genomics experiments, the book discusses the foundations for analyzing microarray data sets, genomic data-mining, the creation of standardized nomenclature and data models, clinical applications of functional genomics research, and the future of functional genomics. |
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by: Leif E. Peterson publisher: Wiley-Interscience, published: 2013-01-01 ASIN: 0470170816 EAN: 9780470170816 The rapid uncontrolled growth of classification methods in DNA microarray studies has resulted in a body of information scattered throughout literature, numerous conference proceedings, and others. This book brings together many of the unsupervised and supervised classification methods now dispersed in the literature. It breaks away from traditional statistical methods by providing chapters on newer machine-learning approaches such as fuzzy methods, artificial neural networks, evolutionary-based genetic algorithms, support vector machines, and swarm intelligence involving particle swarm optimization and ant colony optimization. |
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by: Steen Knudsen publisher: Wiley-Liss, published: 2004-03-02 ASIN: 0471656046 EAN: 9780471656043 sales rank: 2384991 Written for biologists and medical researchers who don't have any special training in data analysis and statistics, Guide to Analysis of DNA Microarray Data, Second Edition begins where DNA array equipment leaves off: the image produced by the microarray. The text deals with the questions that arise starting at this point, providing an introduction to microarray technology, then moving on to image analysis, data analysis, cluster analysis, and beyond. With all chapters rewritten, updated, and expanded to include the latest generation of technology and methods, Guide to Analysis of DNA Microarray Data, Second Edition offers practitioners reliable information using concrete examples and a clear, comprehensible style. This Second Edition features entirely new chapters on: * Image analysis * Experiment design * Automated analysis, integrated analysis, and systems biology * Interpretation of results Intended for readers seeking practical applications, this text covers a broad spectrum of proven approaches in this rapidly growing technology. Additional features include further reading suggestions for each chapter, as well as a thorough review of available analysis software. |
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by: Terry Speed publisher: Chapman and Hall/CRC, published: 2003-03-26 ASIN: 1584883278 EAN: 9781584883272 sales rank: 319084 Although less than a decade old, the field of microarray data analysis is now thriving and growing at a remarkable pace. Biologists, geneticists, and computer scientists as well as statisticians all need an accessible, systematic treatment of the techniques used for analyzing the vast amounts of data generated by large-scale gene expression studies. And there is arguably no group better qualified to do so than the authors of this book. Statistical Analysis of Gene Expression Microarray Data promises to become the definitive basic reference in the field. Under the editorship of Terry Speed, some of the world's most pre-eminent authorities have joined forces to present the tools, features, and problems associated with the analysis of genetic microarray data. These include:: Although the technologies used in large-scale, high throughput assays will continue to evolve, statistical analysis will remain a cornerstone of their success and future development. Statistical Analysis of Gene Expression Microarray Data will help you meet the challenges of large, complex datasets and contribute to new methodological and computational advances. |
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publisher: Chapman and Hall/CRC, published: 2005-11-14 ASIN: 0824754611 EAN: 9780824754617 sales rank: 2586156 Considered highly exotic tools as recently as the late 1990s, microarrays are now ubiquitous in biological research. Traditional statistical approaches to design and analysis were not developed to handle the high-dimensional, small sample problems posed by microarrays. In just a few short years the number of statistical papers providing approaches to analyzing microarray data has gone from almost none to hundreds if not thousands. This overwhelming deluge is quite daunting to either the applied investigator looking for methodologies or the methodologist trying to keep up with the field. DNA Microarrays and Related Genomics Techniques: Design, Analysis, and Interpretation of Experiments consolidates discussions of methodological advances into a single volume. The book’s structure parallels the steps an investigator or an analyst takes when conducting and analyzing a microarray experiment from conception to interpretation. It begins with foundational issues such as ensuring the quality and integrity of the data and assessing the validity of the statistical models employed, then moves on to cover critical aspects of designing a microarray experiment. The book includes discussions of power and sample size, where only very recently have developments allowed such calculations in a high dimensional context, followed by several chapters covering the analysis of microarray data. The amount of space devoted to this topic reflects both the variety of topics and the effort investigators have devoted to developing new methodologies. In closing, the book explores the intellectual frontier – interpretation of microarray data. It discusses new methods for facilitating and affecting formalization of the interpretation process and the movement to make large high dimensional datasets public for further analysis, and methods for doing so. There is no question that this field will continue to advance rapidly and some of the specific methodologies discussed in this book will be replaced by new advances. Nevertheless, the field is now at a point where a foundation of key categories of methods has been laid out and begun to settle. Although the details may change, the majority of the principles described in this book and the foundational categories it contains will stand the test of time, making the book a touchstone for researchers in this field. |
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publisher: Humana Press, published: 2011-12-01 ASIN: 161779399X EAN: 9781617793998 sales rank: 2731248 Recent improvements in the efficiency, quality, and cost of genome-wide sequencing have prompted biologists and biomedical researchers to move away from microarray-based technology to ultra high-throughput, massively parallel genomic sequencing (Next Generation Sequencing, NGS) technology. In Next Generation Microarray Bioinformatics: Methods and Protocols, expert researchers in the field provide techniques to bring together current computational and statistical methods to analyze and interpreting both microarray and NGS data. These methods and techniques include resources for microarray bioinformatics, microarray data analysis, microarray bioinformatics in systems biology, next generation sequencing data analysis, and emerging applications of microarray and next generation sequencing. Written in the highly successful Methods in Molecular Biology™ series format, the chapters include the kind of detailed description and implementation advice that is crucial for getting optimal results in the laboratory. Authoritative and practical, Next Generation Microarray Bioinformatics: Methods and Protocols seeks to aid scientists in the further study of this crucially important research into the human DNA. |
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publisher: CRC Press, published: 2009-04-02 ASIN: 1420094483 EAN: 9781420094480 sales rank: 3022865 In recent years, high-density DNA microarrays have revolutionized biomedical research and drug discovery efforts by the pharmaceutical industry. Their efficacy in identifying and prioritizing drug targets based on their ability to confirm a large number of gene expression measurements in parallel has become a key element in drug discovery. Microarray Innovations: Technology and Experimentation examines the incredibly powerful nature of array technology and the ways in which it can be applied to understanding the genomic basis of disease. Explores a myriad of applications in use today This volume explores recent innovations in the microarray field and tracks the evolution of the major platforms currently used. The international panel of contributors presents a survey of the past five years’ research and advancements in microarray methods and applications and their usage in drug discovery and biomedical research. The contributions discuss improvements in automation (array fabrication and hybridization), new substrates for printing arrays, platform comparisons and contrasts, experimental design, and data normalization and mining schemes. They also review epigenomic array studies, electronic microarrays, comparative genomic hybridization, microRNA arrays, and mutational analyzes. In addition, the book provides coverage of important clinical diagnostic arrays, protein arrays, and neuroscience applications. Examines improved methodologies As microarrays have evolved steadily over time from archetypical in-house complementary DNA (cDNA) arrays to robust commercial oligonucleotide platforms, there has been a migration to higher density biochips with increasing content and better analytical methodologies. This compendium summarizes the vast advances that have been made in this technology, highlighting the supreme advantages of microarray-based approaches in the field of biomedical research. Daniel E. Levy, editor of the Drug Discovery Series, is the founder of DEL BioPharma, a consulting service for drug discovery programs. He also maintains a blog that explores organic chemistry. |