Title Gene mapping, discovery, and expression : methods and protocols / edited by Minou Bina

Published Totowa, N.J. : Humana Press, ©2006

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Description 1 online resource (xiii, 334 pages) : illustrations (some color) Series Methods in molecular biology ; 338 Methods in molecular biology (Clifton, N.J.) ; v. 338 Contents Use of genome browsers to locate your favorite genes / Minou Bina -- Methods for identifying and mapping recent segmental and gene duplications in eukaryotic genomes / Razi Khaja [and others] -- Identification and mapping of paralogous genes on a known genomic DNA sequence / Minou Bina -- Quantitative DNA fiber mapping in genome research and construction of physical maps / Heinz-Ulrich G. Weier and Lisa W. Chu -- PRINS for mapping single copy genes / Avirachan T. Tharapel and Stephen S. Wachtel -- Vista family of computational tools for comparative analysis of DNA sequences and whole genomes / Inna Dubchak and Dmitriy V. Ryaboy -- Computational prediction of cis-regulatory modules from multispecies alignments using Galaxy, table browser, and GALA / Laura Elnitski, David King, and Ross C. Hardison -- Comparative promoter analysis in vertebrate genomes with the CORG workbench / Christoph Dieterich and Martin Vingron -- cis-regulatory region analysis using BEARR / Vinsensius Berlian Vega -- A database of 9-mers from promoter region of human protein-coding genes / Minou Bina, Phillip Wyss, and Syed Rehan Shah -- A program toolkit for the analysis of regulatory regions of genes / Phillip Wyss, Sheryl A. Lazarus, and Minou Bina Analysis of allele-specific gene expression / Julian C. Knight -- Construction of micro-rna containing vectors for expression in mammalian cells / Yoko Fukuda, Hiroaki Kawasaki, and Kazunari Taira -- Mining microarray data at NCBI's gene expression omnibus (GEO) / Tanya Barrett and Ron Edgar -- The Stanford microarray database: a user's guide / Jeremy Gollub, Catherine A. Ball, and Gavin Sherlock -- Detecting nucleosome ladders on unique DNA sequences in mouse liver nuclei / Tomara J. Fleury, Alfred Cioffi, and Arnold Stein -- DNA methyltransferase probing of DNA-protein interactions / Scott A. Hoose and Michael P. Kladde -- Protein binding microarrays (PBMS) for the rapid, high-throughput characterization of the sequence specificities of DNA binding proteins / Michael F. Berger and Martha L. Bulyk -- Quantitative profiling of protein-DNA binding on microarrays / Jiannis Ragoussis, Simon Field, and Irina A. Udalova -- Analysis of protein-DNA binding by streptavidin-agarose pulldown / Kenneth K. Wu -- Isolation and mass spectrometry of specific DNA-binding proteins / Mariana Yaneva and Paul Tempst -- Isolation of transcription factor complexes by in vivo biotinylation tagging and direct binding to streptavidin beads / Patrick Rodriguez [and others] Summary Completion of the sequence of the human genome and the development of high-throughput technologies have opened a new era of research in biology and medicine. In Gene Mapping, Discovery, and Expression: Methods and Protocols, a panel of researchers from around the world and from a variety of disciplines offer a unique blend of computational tools and experimental techniques for gene mapping, comparative genomics, and studies of the control of gene expression. On the computational side, for beginners in the field, the book describes web-based technologies to localize and map genes, to access and retrieve data from microarray databases, to conduct comparative genomics, and to discover the potential "codes" in genomic DNA that may control the expression of protein-coding genes. Detailed experimental techniques described include methods for studying chromatin structure and allele-specific gene expression, methods for high-throughput analysis and characterization of transcription factor binding elements, and methods for isolation and identification of proteins that interact with DNA. The protocols in the book follow the successful Methods in Molecular Biology 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. Cutting-edge and interdisciplinary, Gene Mapping, Discovery, and Expression: Methods and Protocols offers a collection of DNA-sequence-based technologies for gene discovery, retrieval of gene expression data, discovery of regulatory elements, and discovery of transcription factors that interact with DNA Bibliography Includes bibliographical references and index Notes English Print version record Subject Gene mapping -- Methodology Gene mapping -- Data processing Genetics -- Technique. Gene expression. Information storage and retrieval systems -- Nucleotide sequence. Gene mapping. Methodology. Information storage and retrieval systems. Chromosome Mapping -- methods Databases, Nucleic Acid Gene Expression Profiling -- methods Microarray Analysis -- methods Chromosome Mapping Microarray Analysis Gene Expression Profiling Methods Microchip Analytical Procedures Databases, Genetic Genetic Techniques Investigative Techniques Publication Formats Publication Characteristics Chemistry Techniques, Analytical Databases, Factual Analytical, Diagnostic and Therapeutic Techniques and Equipment Databases as Topic Information Storage and Retrieval Information Systems Medical Informatics Applications Information Science Medical Informatics Gene Expression methodology. SCIENCE -- Life Sciences -- Genetics & Genomics. Methodology Information storage and retrieval systems -- Nucleotide sequence Information storage and retrieval systems Gene mapping Gene expression Gene mapping -- Data processing Gene mapping -- Methodology Genetics -- Technique Genre/Form Laboratory manuals Laboratory manuals. Manuels de laboratoire. Form Electronic book Author Bina, Minou. ISBN 1588295753 1597450979 9781597450973 9781588295750 1280832185 9781280832185 9786610832187 6610832188

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