Genome organization and function in the cell nucleus
By way of its clear and logical structure, as well as abundant highresolution illustrations, this is a systematic survey of the players and pathways that control genome function in the mammalian cell nucleus. As such, this handbook and reference ties together recently gained knowledge from a variety...
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| Other Authors: | |
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| Format: | Edited Volume |
| Language: | English |
| Published: |
Weinheim
John Wiley & Sons, Incorporated
2012
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| Edition: | 1st ed. |
| Volumes / Articles: | Show Volumes / Articles. |
| Subjects: | |
| Online Access: | Verlag, lizenzpflichtig, Volltext: https://ebookcentral.proquest.com/lib/kxp/detail.action?docID=843677 Verlag, Volltext: http://gbv.eblib.com/patron/FullRecord.aspx?p=843677 
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| Author Notes: | ed. by Karsten Rippe |
MARC
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| 245 | 0 | 0 | |a Genome organization and function in the cell nucleus |c ed. by Karsten Rippe |
| 250 | |a 1st ed. | ||
| 264 | 1 | |a Weinheim |b John Wiley & Sons, Incorporated |c 2012 | |
| 264 | 4 | |c ©2012. | |
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| 505 | 8 | |a Cover; Contents; Title; Copyright; Dedication; Preface; List of Contributors; Chapter 1: Deciphering DNA Sequence Information; 1.1 Introduction; 1.2 Genes and Transcribed Regions; 1.3 Non-Coding Genomic Elements; 1.4 Regulatory Information; 1.5 Individual Genetic Polymorphisms and Their Effect on Gene Expression; 1.6 Conclusion; Acknowledgments; Chapter 2: DNA Methylation; 2.1 Introduction; 2.2 Eukaryotic DNA Methyltransferases; 2.3 Distribution of 5-Methylcytosine in the Mammalian Genome; 2.4 Control of Gene Expression by DNA Methylation; 2.5 DNA Demethylation | |
| 505 | 8 | |a Chapter 3: Nucleosomes as Control Elements for Accessing the Genome3.1 Introduction and Basic Terminology; 3.2 Nucleosomes are the Building Blocks of Chromatin; 3.3 Nucleosomes Are Dynamic Macromolecular Assemblies; 3.4 Histone Variants and Their Effect on Nucleosome Structure and Dynamics; 3.5 Histone Modifications in Nucleosome and Chromatin Structure; 3.6 DNA Sequence and Nucleosome Positioning; 3.7 Histone Chaperones and Chromatin Dynamics; 3.8 Outlook and Concluding Remarks; Chapter 4: Histone Modifications and Their Role as Epigenetic Marks; 4.1 The Complexity of Histone Modifications | |
| 505 | 8 | |a 4.2 Regulating Histone Modifications in Chromatin4.3 The "Histone Code" Hypothesis; 4.4 Exploiting the Complexity of the Histone Code: "Crosstalk" Between Different Modifications; 4.5 Are Histone Modifications Heritable Epigenetic Marks?; 4.6 Conclusions; Chapter 5: Chromatin Remodeling and Nucleosome Positioning; 5.1 Introduction; 5.2 Chromatin Remodeling Complexes; 5.3 Mechanisms of Nucleosome Translocations; 5.4 Positioning Nucleosomes in the Genome; 5.5 Gene Regulation via Nucleosome Positioning; 5.6 Conclusions; Acknowledgments; Chapter 6: The Folding of the Nucleosome Chain | |
| 505 | 8 | |a 6.1 Introduction6.2 Experimental Systems; 6.3 Nucleosome-Nucleosome Interactions; 6.4 DNA Interactions with the Histone Octamer Protein Core; 6.5 Architectural Chromosomal Proteins and Chromatin States; 6.6 Chromatin Fiber Conformations; 6.7 Conclusions; Acknowledgments; Chapter 7: The Crowded Environment of the Genome; 7.1 Introduction; 7.2 Basics; 7.3 Physicochemical Parameters of the Genome's Environment; 7.4 Implications of a Crowded Environment for the Conformation of the Interphase Genome; 7.5 Assembly and Localization of Macromolecular Machines for Genome Transcription and Replication | |
| 505 | 8 | |a 7.6 The Environment of the Genome during Mitosis7.7 Effects of a Crowded Environment on Searching for Targets in the Genome; 7.8 The Relative Importance of Entropic and Ionic Interactions for the Conformations and Interactions of Macromolecules in the Nucleus; 7.9 The Evolution of Genomes; Chapter 8: The Nuclear Lamina as a Chromatin Organizer; 8.1 Introduction; 8.2 Genome Organization with Respect to the Nuclear Periphery; 8.3 Interactions between NE Proteins and Chromatin Proteins/Chromatin Regulatory Proteins; 8.4 Mechanisms Directing Changes in Genome Organization during Development | |
| 505 | 8 | |a 8.5 Gene Regulation as a Consequence of Peripheral Positioning | |
| 520 | |a By way of its clear and logical structure, as well as abundant highresolution illustrations, this is a systematic survey of the players and pathways that control genome function in the mammalian cell nucleus. As such, this handbook and reference ties together recently gained knowledge from a variety of scientific disciplines and approaches, dissecting all major genomic events: transcription, replication, repair, recombination and chromosome segregation. A special emphasis is put on transcriptional control, including genome-wide interactions and non-coding RNAs, chromatin structure, epigenetics and nuclear organization. With its focus on fundamental mechanisms and the associated biomolecules, this will remain essential reading for years to come. | ||
| 520 | |a Intro -- Genome Organization and Function in the Cell Nucleus -- Contents -- Preface -- List of Contributors -- 1: Deciphering DNA Sequence Information -- 1.1: Introduction -- 1.2: Genes and Transcribed Regions -- 1.2.1: Open Reading Frames -- 1.2.2: Mapping Transcriptional Start Sites -- 1.2.3: Mapping Untranslated Regions on mRNA -- 1.3: Non-Coding Genomic Elements -- 1.3.1: Pseudogenes -- 1.3.2: Repeats -- 1.3.3: Structural Variants -- 1.3.4: Methods for SV Detection -- 1.3.5: Transposons and Retrotransposons -- 1.4: Regulatory Information -- 1.4.1: Classes of Regulatory Elements -- 1.4.2: Transcription Factor Binding Motifs -- 1.4.3: Allele-Specific Expression -- 1.5: Individual Genetic Polymorphisms and Their Effect on Gene Expression -- 1.6: Conclusion -- 2: DNA Methylation -- 2.1: Introduction -- 2.1.1: Discovery of 5-Methylcytosine in DNA -- 2.1.2: Epigenetic Control of Gene Expression -- 2.2: Eukaryotic DNA Methyltransferases -- 2.2.1: Dnmt1 -- 2.2.2: The Dnmt3 Family -- 2.2.3: Cooperative Function of Dnmts -- 2.3: Distribution of 5-Methylcytosine in the Mammalian Genome -- 2.3.1: Spatial Distribution of 5-Methylcytosine -- 2.3.2: CpG Islands and Promoter Regulation -- 2.3.3: Repetitive DNA Sequences -- 2.3.4: Temporal Distribution of 5-Methylcytosine -- 2.4: Control of Gene Expression by DNA Methylation -- 2.4.1: Loss of Transcription Factor Binding -- 2.4.2: Methyl-CpG Binding Proteins -- 2.4.3: Interconnection of DNA Methylation with Other Epigenetic Pathways -- 2.4.4: DNA Methylation, Higher Order Chromatin Structure, and Nuclear Architecture -- 2.5: DNA Demethylation -- 3: Nucleosomes as Control Elements for Accessing the Genome -- 3.1: Introduction and Basic Terminology -- 3.2: Nucleosomes are the Building Blocks of Chromatin -- 3.2.1: Histones -- 3.2.2: Protein DNA Interactions in the Nucleosome. | ||
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