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Gene Regulation and Metabolism
Post-Genomic Computational Approaches
Edited by Julio Collado-Vides and Ralf Hofestädt
| Preface | vii |
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| 1 | Are the Eyes Homologous?
Jeremy C. Ahouse
 Sample Chapter - Download PDF (107 KB) | 1 |
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| I | Information and Knowledge Representation | 17 |
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| 2 | Automation of Protein Sequence Characterization and Its Application in Whole Proteome Analysis
Rolf Apweiler, Margaret Biswas, Wolfgang Fleischmann, Evgenia V. Kriventseva and Nicola Mulder | 19 |
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| 3 | Information Fusion and Metabolic Network Control
Andreas Freier, Ralf Hofestädt, Matthias Lange and Uwe Scholz | 49 |
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| II | Gene Regulation: From Sequence to Networks | 85 |
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| 4 | Specificity of Protein-DNA Interactions
Gary D. Stormo | 87 |
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| 5 | Genomics of Gene Regulation: The View from Escherichia coli
Julio Collado-Vides, Gabriel Moreno-Hagelsieb, Ernesto Pérez-Rueda, Heladia Salgado, Araceli M. Huerta, Rosa Maria Gutiérrez, David A. Rosenblueth, Andrés Christen, Esperanza Benitez-Bellon, Arturo Medrano-Soto, Socorro Gama-Castro, Alberto Santos-Zavaleta, César Bonavides-Martinez, Edgar Diaz-Peredo, Fabiola Sanchez-Solano and Dulce Maria Millan | 103 |
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| 6 | Discovery of DNA Regulatory Motifs
Abigail Manson McGuire and George M. Church | 129 |
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| 7 | Gene Networks Description and Modeling in the GeneNet System
Nikolay A. Kolchanov, Elena A. Ananko, Vitali A. Likhoshvai, Olga A. Podkolodnaya, Elena V. Ignatieva, Alexander V. Ratushny and Yuri G. Matushkin | 149 |
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| 8 | Regulation of Cellular States in Mammalian Cells from a Genomewide View
Sui Huang | 181 |
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| III | Postgenomic Approaches | 221 |
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| 9 | Predicting Protein Function and Networks on a Genomewide Scale
Edward M. Marcotte | 223 |
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| 10 | Metabolic Pathways
Steffen Schmidt and Thomas Dandekar | 251 |
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| 11 | Toward Computer Simulation of the Whole Cell
Masaru Tomita | 273 |
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| Glossary | 289 |
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| Corresponding Authors | 297 |
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| Index
Sample Chapter - Download PDF (83 KB) | 299 |
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