Microarray Bioinformatics

Author : Dov Stekel
Publisher : Cambridge University Press
Page : 296 pages
File Size : 52,6 Mb
Release : 2003-09-08
Category : Medical
ISBN : 052152587X

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Microarray Bioinformatics by Dov Stekel Pdf

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.

Author : Verónica Bolón-Canedo,Amparo Alonso-Betanzos
Publisher : Humana
Page : 299 pages
File Size : 50,9 Mb
Release : 2019-05-22
Category : Science
ISBN : 1493994417

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Microarray Bioinformatics by Verónica Bolón-Canedo,Amparo Alonso-Betanzos Pdf

This book provides a comprehensive, interdisciplinary collection of the main, up-to-date methods, tools, and techniques for microarray data analysis, covering the necessary steps for the acquisition of the data, its preprocessing, and its posterior analysis. Featuring perspectives from biology, computer science, and statistics, the volume explores machine learning methods such as clustering, feature selection, classification, data normalization, and missing value imputation, as well as the statistical analysis of the data and the most popular computer tools to analyze microarray data. Written for the highly successful Methods in Molecular Biology series, chapters include the kind of detailed implementation advice that will aid researchers in getting successful results. Cutting-edge and authoritative, Microarray Bioinformatics serves as an ideal guide for researchers and graduate students in bioinformatics, with basic knowledge in biology and computer science, and with a view to work with microarray datasets.

Author : Junbai Wang,Aik Choon Tan,Tianhai Tian
Publisher : Humana Press
Page : 401 pages
File Size : 43,6 Mb
Release : 2011-12-02
Category : Science
ISBN : 161779399X

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Next Generation Microarray Bioinformatics by Junbai Wang,Aik Choon Tan,Tianhai Tian Pdf

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 BiologyTM 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.

Author : Robert Gentleman,Vincent Carey,Wolfgang Huber,Rafael Irizarry,Sandrine Dudoit
Publisher : Springer Science & Business Media
Page : 478 pages
File Size : 42,7 Mb
Release : 2005-12-29
Category : Computers
ISBN : 9780387293622

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Bioinformatics and Computational Biology Solutions Using R and Bioconductor by Robert Gentleman,Vincent Carey,Wolfgang Huber,Rafael Irizarry,Sandrine Dudoit Pdf

Full four-color book. Some of the editors created the Bioconductor project and Robert Gentleman is one of the two originators of R. All methods are illustrated with publicly available data, and a major section of the book is devoted to fully worked case studies. Code underlying all of the computations that are shown is made available on a companion website, and readers can reproduce every number, figure, and table on their own computers.

Author : Anonim
Publisher : Elsevier
Page : 512 pages
File Size : 53,7 Mb
Release : 2006-08-28
Category : Science
ISBN : 9780080464664

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DNA Microarrays, Part B: Databases and Statistics by Anonim Pdf

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

Author : Verónica Bolón-Canedo,Amparo Alonso-Betanzos
Publisher : Unknown
Page : 299 pages
File Size : 49,5 Mb
Release : 2019
Category : Bioinformatics
ISBN : 1493994425

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Microarray Bioinformatics by Verónica Bolón-Canedo,Amparo Alonso-Betanzos Pdf

Author : Michael J. Korenberg
Publisher : Springer Science & Business Media
Page : 569 pages
File Size : 54,6 Mb
Release : 2008-02-03
Category : Science
ISBN : 9781597453905

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Microarray Data Analysis by Michael J. Korenberg Pdf

In this new volume, renowned authors contribute fascinating, cutting-edge insights into microarray data analysis. Information on an array of topics is included in this innovative book including in-depth insights into presentations of genomic signal processing. Also detailed is the use of tiling arrays for large genomes analysis. The protocols follow the successful Methods in Molecular BiologyTM series format, offering step-by-step instructions, an introduction outlining the principles behind the technique, lists of the necessary equipment and reagents, and tips on troubleshooting and avoiding pitfalls.

Author : Daniel P. Berrar,Werner Dubitzky,Martin Granzow
Publisher : Springer Science & Business Media
Page : 382 pages
File Size : 46,9 Mb
Release : 2007-05-08
Category : Science
ISBN : 9780306478154

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A Practical Approach to Microarray Data Analysis by Daniel P. Berrar,Werner Dubitzky,Martin Granzow Pdf

In the past several years, DNA microarray technology has attracted tremendous interest in both the scientific community and in industry. With its ability to simultaneously measure the activity and interactions of thousands of genes, this modern technology promises unprecedented new insights into mechanisms of living systems. Currently, the primary applications of microarrays include gene discovery, disease diagnosis and prognosis, drug discovery (pharmacogenomics), and toxicological research (toxicogenomics). Typical scientific tasks addressed by microarray experiments include the identification of coexpressed genes, discovery of sample or gene groups with similar expression patterns, identification of genes whose expression patterns are highly differentiating with respect to a set of discerned biological entities (e.g., tumor types), and the study of gene activity patterns under various stress conditions (e.g., chemical treatment). More recently, the discovery, modeling, and simulation of regulatory gene networks, and the mapping of expression data to metabolic pathways and chromosome locations have been added to the list of scientific tasks that are being tackled by microarray technology. Each scientific task corresponds to one or more so-called data analysis tasks. Different types of scientific questions require different sets of data analytical techniques. Broadly speaking, there are two classes of elementary data analysis tasks, predictive modeling and pattern-detection. Predictive modeling tasks are concerned with learning a classification or estimation function, whereas pattern-detection methods screen the available data for interesting, previously unknown regularities or relationships.

Author : Helen Causton,John Quackenbush,Alvis Brazma
Publisher : John Wiley & Sons
Page : 176 pages
File Size : 52,8 Mb
Release : 2009-04-01
Category : Science
ISBN : 9781444311563

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Microarray Gene Expression Data Analysis by Helen Causton,John Quackenbush,Alvis Brazma Pdf

This guide covers aspects of designing microarray experiments and analysing the data generated, including information on some of the tools that are available from non-commercial sources. Concepts and principles underpinning gene expression analysis are emphasised and wherever possible, the mathematics has been simplified. The guide is intended for use by graduates and researchers in bioinformatics and the life sciences and is also suitable for statisticians who are interested in the approaches currently used to study gene expression. Microarrays are an automated way of carrying out thousands of experiments at once, and allows scientists to obtain huge amounts of information very quickly Short, concise text on this difficult topic area Clear illustrations throughout Written by well-known teachers in the subject Provides insight into how to analyse the data produced from microarrays

Author : Anonim
Publisher : Elsevier
Page : 512 pages
File Size : 43,9 Mb
Release : 2011-08-19
Category : Science
ISBN : 0080464653

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DNA Microarrays, Part A: Array Platforms and Wet-Bench Protocols by Anonim Pdf

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

Author : Pierre Baldi,G. Wesley Hatfield
Publisher : Cambridge University Press
Page : 238 pages
File Size : 45,9 Mb
Release : 2011-04-28
Category : Science
ISBN : 1139437607

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DNA Microarrays and Gene Expression by Pierre Baldi,G. Wesley Hatfield Pdf

Massive data acquisition technologies, such as genome sequencing, high-throughput drug screening, and DNA arrays are in the process of revolutionizing biology and medicine. Using the mRNA of a given cell, at a given time, under a given set of conditions, DNA microarrays can provide a snapshot of the level of expression of all the genes in the cell. Such snapshots can be used to study fundamental biological phenomena such as development or evolution, to determine the function of new genes, to infer the role individual genes or groups of genes may play in diseases, and to monitor the effect of drugs and other compounds on gene expression. Originally published in 2002, this inter-disciplinary introduction to DNA arrays will be of value to anyone with an a interest in this powerful technology.

Author : Jang B. Rampal
Publisher : Springer Science & Business Media
Page : 927 pages
File Size : 40,9 Mb
Release : 2008-02-03
Category : Science
ISBN : 9781597453042

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Microarrays by Jang B. Rampal Pdf

This second part in the two-volume work Microarrays details applications and data analysis. It includes insight into non-mammalian vertebrate systems, processes and protocols for high quality glass-based microarrays. Coverage includes applications in DNA, peptide, antibody and carbohydrate microarraying, oligonucleotide microarrays generated from hydrolysis PCR probe sequences, microarray platforms in clinical practice, and screening of cDNA libraries on glass slide microarrays. Authors in this volume also discuss protocols for predicting DNA duplex stability on oligonucleotide arrays and integrated analysis of microarray results.

Author : Steen Knudsen
Publisher : John Wiley & Sons
Page : 148 pages
File Size : 43,9 Mb
Release : 2011-09-23
Category : Science
ISBN : 9780471461180

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A Biologist's Guide to Analysis of DNA Microarray Data by Steen Knudsen Pdf

A great introductory book that details reliable approaches to problems met in standard microarray data analyses. It provides examples of established approaches such as cluster analysis, function prediction, and principle component analysis. Discover real examples to illustrate the key concepts of data analysis. Written for those without any advanced background in math, statistics, or computer sciences, this book is essential for anyone interested in harnessing the immense potential of microarrays in biology and medicine.

Author : Karl Fraser,Zidong Wang,Xiaohui Liu
Publisher : CRC Press
Page : 337 pages
File Size : 43,7 Mb
Release : 2010-01-25
Category : Mathematics
ISBN : 9781420091540

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Microarray Image Analysis by Karl Fraser,Zidong Wang,Xiaohui Liu Pdf

To harness the high-throughput potential of DNA microarray technology, it is crucial that the analysis stages of the process are decoupled from the requirements of operator assistance. Microarray Image Analysis: An Algorithmic Approach presents an automatic system for microarray image processing to make this decoupling a reality. The proposed syste

Author : Sorin Draghici
Publisher : CRC Press
Page : 1036 pages
File Size : 49,8 Mb
Release : 2016-04-19
Category : Computers
ISBN : 9781439809761

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Statistics and Data Analysis for Microarrays Using R and Bioconductor by Sorin Draghici Pdf

Richly illustrated in color, Statistics and Data Analysis for Microarrays Using R and Bioconductor, Second Edition provides a clear and rigorous description of powerful analysis techniques and algorithms for mining and interpreting biological information. Omitting tedious details, heavy formalisms, and cryptic notations, the text takes a hands-on,