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Titlebook: Computational Biology of Transcription Factor Binding; Istvan Ladunga Book 2010 Springer Science+Business Media, LLC 2010 Annotation.ChIP-

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发表于 2025-3-21 20:03:09 | 显示全部楼层 |阅读模式
书目名称Computational Biology of Transcription Factor Binding
编辑Istvan Ladunga
视频video
概述Guides scientists of all disciplines through the jungle of regulatory regions, ChIP-seq, about 200 motif discovery tools and others.Includes vital tricks-of-the-trade from experts well-versed in the t
丛书名称Methods in Molecular Biology
图书封面Titlebook: Computational Biology of Transcription Factor Binding;  Istvan Ladunga Book 2010 Springer Science+Business Media, LLC 2010 Annotation.ChIP-
描述Transcriptional regulation controls the basic processes of life. Its complex, dynamic, and hierarchical networks control the momentary availability of messenger RNAs for protein synthesis. Transcriptional regulation is key to cell division, development, tissue differen- ation, and cancer as discussed in Chapters 1 and 2. We have witnessed rapid, major developments at the intersection of computational biology, experimental technology, and statistics. A decade ago, researches were struggling with notoriously challenging predictions of isolated binding sites from low-throughput experiments. Now we can accurately predict cis-regulatory modules, conserved cl- ters of binding sites (Chapters 13 and 15), partly based on high-throughput ch- matin immunoprecipitation experiments in which tens of millions of DNA segments are sequenced by massively parallel, next-generation sequencers (ChIP-seq, Chapters 9, 10, and 11). These spectacular developments have allowed for the genome-wide mappings of tens of thousands of transcription factor binding sites in yeast, bacteria, mammals, insects, worms, and plants. Please also note the no less spectacular failures in many laboratories around the world.
出版日期Book 2010
关键词Annotation; ChIP-seq; Genome browsers; Motif discovery tools; Promoter; Statistics; Transcriptional regula
版次1
doihttps://doi.org/10.1007/978-1-60761-854-6
isbn_softcover978-1-4939-6166-5
isbn_ebook978-1-60761-854-6Series ISSN 1064-3745 Series E-ISSN 1940-6029
issn_series 1064-3745
copyrightSpringer Science+Business Media, LLC 2010
The information of publication is updating

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Components and Mechanisms of Regulation of Gene Expression, with specific DNA motifs in the control regions of the genes that they regulate. Upon binding to DNA, and through specific protein–protein interactions, these regulatory proteins convey signals to the basal transcriptional machinery, containing the respective RNA polymerases, resulting in particula
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Three-Dimensional Structures of DNA-Bound Transcriptional Regulators,rily based on three-dimensional structural studies using the methods of X-ray crystallography and NMR. Vast amount of accumulated experimental data have revealed the basic principles of protein–DNA complex formation paving the way for better modeling and prediction of DNA-binding properties of trans
发表于 2025-3-22 10:42:23 | 显示全部楼层
Identification of Promoter Regions and Regulatory Sites, expression patterns, cell specificity and development. This chapter describes the advanced approaches to identify promoters in animal, plant and bacterial sequences. Also, we discuss an approach to identify statistically significant regulatory motifs in genomic sequences.
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The Motif Tool Assessment Platform (MTAP) for Sequence-Based Transcription Factor Binding Site Predf (semi-)automated computer-assisted prediction methods is needed to find TFBS over an entire genome, which is a first step in reconstructing mechanisms that control gene activity. Bioinformatics journals continue to publish diverse methods for predicting TFBS on a monthly basis. To help practitione
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Computational Analysis of ChIP-seq Data,e genome-wide transcription factor binding site and chromatin modification data produced by ChIP-seq provide invaluable information for studying gene regulation. This chapter reviews basic characteristics of ChIP-seq data and introduces a computational procedure to identify protein–DNA interactions
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