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Genomic Control Process Development and Evolution

By: Peter, Isabelle.
Contributor(s): Davidson, Eric H [Author].
Material type: materialTypeLabelBookPublisher: Academic Press 2015Edition: 1. Aufl.Description: 448 S.ISBN: 9780124047297.Subject(s): Gene Regulatory Networks | Gene Expression RegulationAdditional physical formats: No title; No titleDDC classification: 571.8 Online resources: Inhaltsverzeichnis | C Cover
Contents:
Front Cover; IFC; GENOMIC CONTROL PROCESS; Copyright; About the Authors; Contents; Preface; Dedications; Chapter 1 - The Genome in Development; 1. Views of Development; 2. Levels of Control of Gene Expression: Transcriptional Regulation; 3. Levels of Control of Gene Expression: Noncoding RNAs; 4. Levels of Control of Gene Expression: Histone Modifications; 5. The Regulatory Genome; REFERENCES; Chapter 2 - Gene Regulatory Networks; 1. Introductory Overview of Developmental GRNs; 2. Boolean Spatial Output; 3. Regulatory States; 4. Regulation in Cis; 5. Module Choice; 6. Transcriptional Dynamics.
7. Historical Origins and Antecedents of GRN TheoryREFERENCES; Chapter 3 - Genomic Strategies for Embryonic Development; 1. Common Principles of Embryonic Development; 2. Phylogenetic Framework; 3. Genomic Strategies of Control in Mode 1 Embryonic Processes; 4. Genomic Strategies of Control in Mode 2 Embryonic Processes; 5. Global Aspects of A/P Spatial Regulatory Patterning in the Syncytial Drosophila Blastoderm; REFERENCES; Chapter 4 - Genomic Control Processes in Adult Body Part Formation; 1. Common Principles of Body Part Formation; 2. Limbs in Amniotes; 3. Fly Legs.
4. Establishment of Spatial Regulatory States in Early Development of Fly and Mammalian Brains5. The Vertebrate Heart; 6. Spatial Regulatory State Subdivision in and Around the Drosophila Ocellus; 7. The Vertebrate Gut; Chapter 5 - Genomic Strategies for Terminal Cell Fate Specification; 1. Circumstances of Terminal Cell Fate Specification; 2. Combinatorial Cis-Regulatory Definition of Differentiation Gene Batteries; 3. Cell Type Specification in Multipotential Embryonic Precursors; 4. A Comment on Stem Cells in Postembryonic Life.
5. Modular Call-Up of Given Specification Processes in Multiple Developmental ContextsREFERENCES; Chapter 6 - On the Modeling of Developmental Gene Regulatory Networks; 1. Topological Network Models; 2. ODE Models of Circuit Dynamics; 3. Boolean Models of Network Logic; 4. Conclusions; REFERENCES; Chapter 7 - Evolution of Bilaterian Animals: Processes of Change and Stasis in Hierarchical Developmental Gene Regulatory Networks; 1. Introduction: Evolution by Genomic Change at Different Levels of GRN Hierarchy; 2. Evolution of the Body Plan by Co-Optive Alteration of GRN Structure.
3. GRN Stasis and Phylogeny4. Trans-Phyletic Conservation of Cell Type-Specific Regulatory States; 5. Bilaterian Evolution; REFERENCES; Gene Index; Subject Index.
Summary: Genomic Control Processexplores the biological phenomena around genomic regulatory systems that control and shape animal development processes, and which determine the nature of evolutionary processes that affect body plan. Unifying and simplifying the descriptions of development and evolution by focusing on the causality in these processes, it provides a comprehensive method of considering genomic control across diverse biological processes. This book is essential for graduate researchers in genomics, systems biology and molecular biology seeking to understand deep biological processes which regulate the structure of animals during development.Covers a vast area of current biological research to produce a genome oriented regulatory bioscience of animal life Places gene regulation, embryonic and postembryonic development, and evolution of the body plan in a unified conceptual frameworkProvides the conceptual keys to interpret a broad developmental and evolutionary landscape with precise experimental illustrations drawn from contemporary literatureIncludes a range of material, from developmental phenomenology to quantitative and logic models, from phylogenetics to the molecular biology of gene regulation, from animal models of all kinds to evidence of every relevant typeDemonstrates the causal power of system-level understanding of genomic control  processConceptually organizes a constellation of complex and diverse biological phenomenaInvestigates fundamental developmental control system logic in diverse circumstances and expresses these in conceptual modelsExplores mechanistic evolutionary processes, illuminating the evolutionary consequences of developmental control systems as they are encoded in the genome Isabelle S. Peter is Assistant Research Professor and Eric H. Davidson is Norman Chandler Professor of Cell Biology in the Division of Biology and Biological Engineering at the California Institute of Technology, Pasadena, California. Over the last seven years they have co-authored a series of works on experimental, conceptual and computational analyses of developmental gene regulatory networks, including their evolutionary significance. The discussions and conceptual explorations occasioned by this collaboration produced the new synthetic views encompassed in this book, building on decades of earlier work summarized in the 2001 and 2006 Academic Press books by Eric H. Davidson.
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Front Cover; IFC; GENOMIC CONTROL PROCESS; Copyright; About the Authors; Contents; Preface; Dedications; Chapter 1 - The Genome in Development; 1. Views of Development; 2. Levels of Control of Gene Expression: Transcriptional Regulation; 3. Levels of Control of Gene Expression: Noncoding RNAs; 4. Levels of Control of Gene Expression: Histone Modifications; 5. The Regulatory Genome; REFERENCES; Chapter 2 - Gene Regulatory Networks; 1. Introductory Overview of Developmental GRNs; 2. Boolean Spatial Output; 3. Regulatory States; 4. Regulation in Cis; 5. Module Choice; 6. Transcriptional Dynamics.

7. Historical Origins and Antecedents of GRN TheoryREFERENCES; Chapter 3 - Genomic Strategies for Embryonic Development; 1. Common Principles of Embryonic Development; 2. Phylogenetic Framework; 3. Genomic Strategies of Control in Mode 1 Embryonic Processes; 4. Genomic Strategies of Control in Mode 2 Embryonic Processes; 5. Global Aspects of A/P Spatial Regulatory Patterning in the Syncytial Drosophila Blastoderm; REFERENCES; Chapter 4 - Genomic Control Processes in Adult Body Part Formation; 1. Common Principles of Body Part Formation; 2. Limbs in Amniotes; 3. Fly Legs.

4. Establishment of Spatial Regulatory States in Early Development of Fly and Mammalian Brains5. The Vertebrate Heart; 6. Spatial Regulatory State Subdivision in and Around the Drosophila Ocellus; 7. The Vertebrate Gut; Chapter 5 - Genomic Strategies for Terminal Cell Fate Specification; 1. Circumstances of Terminal Cell Fate Specification; 2. Combinatorial Cis-Regulatory Definition of Differentiation Gene Batteries; 3. Cell Type Specification in Multipotential Embryonic Precursors; 4. A Comment on Stem Cells in Postembryonic Life.

5. Modular Call-Up of Given Specification Processes in Multiple Developmental ContextsREFERENCES; Chapter 6 - On the Modeling of Developmental Gene Regulatory Networks; 1. Topological Network Models; 2. ODE Models of Circuit Dynamics; 3. Boolean Models of Network Logic; 4. Conclusions; REFERENCES; Chapter 7 - Evolution of Bilaterian Animals: Processes of Change and Stasis in Hierarchical Developmental Gene Regulatory Networks; 1. Introduction: Evolution by Genomic Change at Different Levels of GRN Hierarchy; 2. Evolution of the Body Plan by Co-Optive Alteration of GRN Structure.

3. GRN Stasis and Phylogeny4. Trans-Phyletic Conservation of Cell Type-Specific Regulatory States; 5. Bilaterian Evolution; REFERENCES; Gene Index; Subject Index.

Genomic Control Processexplores the biological phenomena around genomic regulatory systems that control and shape animal development processes, and which determine the nature of evolutionary processes that affect body plan. Unifying and simplifying the descriptions of development and evolution by focusing on the causality in these processes, it provides a comprehensive method of considering genomic control across diverse biological processes. This book is essential for graduate researchers in genomics, systems biology and molecular biology seeking to understand deep biological processes which regulate the structure of animals during development.Covers a vast area of current biological research to produce a genome oriented regulatory bioscience of animal life Places gene regulation, embryonic and postembryonic development, and evolution of the body plan in a unified conceptual frameworkProvides the conceptual keys to interpret a broad developmental and evolutionary landscape with precise experimental illustrations drawn from contemporary literatureIncludes a range of material, from developmental phenomenology to quantitative and logic models, from phylogenetics to the molecular biology of gene regulation, from animal models of all kinds to evidence of every relevant typeDemonstrates the causal power of system-level understanding of genomic control  processConceptually organizes a constellation of complex and diverse biological phenomenaInvestigates fundamental developmental control system logic in diverse circumstances and expresses these in conceptual modelsExplores mechanistic evolutionary processes, illuminating the evolutionary consequences of developmental control systems as they are encoded in the genome Isabelle S. Peter is Assistant Research Professor and Eric H. Davidson is Norman Chandler Professor of Cell Biology in the Division of Biology and Biological Engineering at the California Institute of Technology, Pasadena, California. Over the last seven years they have co-authored a series of works on experimental, conceptual and computational analyses of developmental gene regulatory networks, including their evolutionary significance. The discussions and conceptual explorations occasioned by this collaboration produced the new synthetic views encompassed in this book, building on decades of earlier work summarized in the 2001 and 2006 Academic Press books by Eric H. Davidson.

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