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Epigenetics and systems biology /
Epigenetics and Systems Biology highlights the need for collaboration between experiments and theoretical modeling that is required for successful application of systems biology in epigenetics studies. This book breaks down the obstacles which exist between systems biology and epigenetics researcher...
| Clasificación: | Libro Electrónico |
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| Otros Autores: | |
| Formato: | Electrónico eBook |
| Idioma: | Inglés |
| Publicado: |
London :
Academic Press,
2017.
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| Colección: | Transational epigenetics series.
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| Temas: | |
| Acceso en línea: | Texto completo |
Tabla de Contenidos:
- Front Cover; Epigenetics and Systems Biology; Copyright Page; Contents; List of Contributors; I. Introduction; References; II. Where Am I? Genomic Features and DNA Sequence Principles Defining Sites of Epigenetic Regulation: Machine Learning; 1 Computational Identification of Polycomb/Trithorax Response Elements; Introduction to Polycomb/Trithorax Response Elements; 2003 Ad Hoc Approach to PRE Prediction, Together with its Particular Motivations; Evaluating Classification Performance; Results of 2003 PRE Prediction; New Motifs Discovered; Recasting PRE Prediction as a Machine Learning Problem.
- Misclassification Costs and the Trade-off DimensionEvolutionary Analysis and Search-Space Reduction; Today: Genome-Wide Profiling Data; How Good is Our Method When Evaluated Under These Data?; Sensitivity and Specificity of Genome-Wide Profiling; Conclusion; References; Glossary; List of Acronyms and Abbreviations; 2 Modeling Chromatin States; The Purpose of Modeling Chromatin States; The Common Approach; What Have We Learned From those Models?; Static Versus Dynamical Models; Chromatin States are Attractors; References; Glossary; List of Acronyms and Abbreviations.
- 3 Crossing Borders: Modeling Approaches to Understand Chromatin Domains and Their BoundariesIntroduction; The Expanding Universe of Structural Domains; Experimental Techniques; Modeling Higher Order Chromatin Structure; Formalizing Compartment Calling and Boundary Prediction; Outlook; References; List of Acronyms and Abbreviations; 4 Inferring Chromatin Signaling From Genome-Wide ChIP-seq Data; Introduction; Experimental Techniques; Modeling; Perturbing the System; Outlook; References; Glossary; List of Acronyms and Abbreviations.
- III. Everything's Moving: In Vivo Dynamics of Epigenetic Regulators: Kinetic Models Based on Ordinary Differential Equation ... 5 "In Vivo Biochemistry": Absolute Quantification and Kinetic Modeling Applied to Polycomb and Trithorax Regulation; Introduction; The Journey Begins: DNA Recombinases Yield Their Secrets to Mathematics; The Journey Continues: Epigenetics Meets Mathematics; Absolute Quantification In Vivo: A Technical Challenge; Fluorescent Tagging: A Powerful Tool for Live Imaging; Absolute Quantification of Molecule Numbers: Double Check!
- Everything's Moving: Methods for Measuring Kinetic Parameters In VivoIn Vivo Biochemistry of an Epigenetic System: What Did We Learn?; Mathematical Modeling of the System: Defining What We Don't Know; Basic Principles of Kinetic Modeling; Kinetic Modeling of Polycomb and ASH1 Makes Mechanistic Predictions; Model 1: Wrong But Useful; Model 2: Still Wrong But More Useful; Model 3: This One Might Be Right!; Back to the Bench: Testing the Model by Perturbing the System; Outlook; Acknowledgments; References; Glossary; List of Acronyms and Abbreviations.