| Preface |
| Foreword |
| Introduction |
| Lessons from Bacteria / Chapter 1： |
| Rna Polymerase |
| Regulated Recruitment: The lac Genes |
| Protein-DNA Interactions |
| Detecting Physiological Signals |
| Promoter Recognition and Transcription by RNA Polymerase |
| Switching the Genes On: Activation by CAP |
| Cooperative Binding of Proteins to DNA |
| Cooperative Binding and Gene Activation by CAP |
| Repression by Lac Repressor |
| Interim Summary and Extension |
| More Regulated Recruitment: The Bacteriophage [lambda] |
| The Switch |
| Establishing Lysogeny |
| Analogies with lac |
| Promoters |
| Repression |
| Activation |
| Making an Efficient Switch |
| Cooperative Binding of [lambda] Repressor to DNA |
| Autogenous Control by Repressor |
| Panel: Antitermination: N and Q |
| Interim Summary and Extensions |
| Activation: A Closer Look |
| DNA binding: A Closer Look |
| Synergy |
| Polymerase Activation: glnA and Related Genes |
| Promoter Recognition by [sigma superscript 54]-containing Polymerase |
| DNA Binding by NtrC |
| Detecting the Physiological Signal |
| Activation by NtrC |
| Other Activators of [sigma superscript 54] Polymerase |
| Interim Summary |
| Panel: Phage T4 Late Genes |
| Promoter Activation: merT and Related Genes |
| Promoter Recognition |
| Detecting the Physiological Signal and Activation |
| General Summary |
| Panel: More on Repression in Bacteria |
| Footnotes |
| Bibliography |
| Yeast: A Single-celled Eukaryote / Chapter 2： |
| Other Parts of the Transcriptional Machinery |
| An Overview of Activation |
| A Model Case: The Gal Genes |
| Overview of Regulation of a GAL Gene |
| Specific DNA Binding |
| How Gal4 Works |
| Separate DNA-binding and Activating Regions of Gal4 |
| Activating Region Structure |
| Independent Mutations Can Increase Activator Strength Additively When Combined |
| Activating Regions Work with an Efficiency Proportional to Their Lengths |
| Activating Region-Target Interactions Tolerate Sequence Changes |
| New Activating Regions Are Easily Generated |
| Squelching |
| Recruitment Visualized |
| Activator Bypass Experiments |
| Activation by a Heterologous Protein-Protein Interaction |
| Direct Tethering of the Transcriptional Machinery |
| Panel: Activator Bypass Experiments |
| How does Gal4 Recruit Polymerase? |
| Nucleosomes and Their Modifiers |
| Targets of Gal4: Experiments Performed In Vitro |
| Action of Gal4: Experiments Performed In Vivo |
| What Is Required for Activation? |
| What Appears at the Gene Upon Activation? |
| Imposing a Need for Nucleosome Modifiers |
| Weakening the Gal4-binding Sites or the Gal4-activating region |
| Cell-cycle Stage-dependent Requirement for Nucleosome Modifiers |
| Activation: An Interim Summary |
| Repression by Mig1 |
| Signal Integration and Combinatorial Control |
| Cooperative Binding with Alternative Partners |
| Sequential Binding of Activators |
| Silencing |
| Heterochromatic Chromosomal Regions |
| Compartmentalization |
| Panel: Variegation Visualized |
| Panel: Epigenetics |
| DNA Looping |
| Summary |
| Some Notes on Higher Eukaryotes / Chapter 3： |
| Mechanism of Activation: Recruitment |
| What is Recruited? |
| Transcriptional Machinery and Promoters |
| Nucleosomal Templates |
| Targets |
| The Human Interferon-[beta] Gene |
| The Drosophila HSP70 Gene |
| Detecting and Transmitting Physiological Signals |
| Transport Into and Out of the Nucleus |
| Phosphorylation of Inhibitor or Activator in the Nucleus |
| Panel: Transport-dependent Proteolysis: The Case of SREBP |
| Allosteric Change of DNA-bound Activator |
| Signal Integration, Combinatorial Control, and Alternative Enhancers |
| The Human Interferon-[beta] Enhancer |
| The Drosophila eve Gene |
| Action at a Distance |
| Dna Methylation, Insulators, and Imprinting |
| Chromosomal Position and Gene Expression |
| Overview |
| Enzyme Specificity and Regulation / Chapter 4： |
| Ubiquitylation and Proteolysis |
| Splicing |
| Imposing Specificity on Kinases |
| Cyclin-dependent Kinases |
| Transcriptional Antitermination by TAT |
| Cytokine Receptors and Signaling through STATs |
| Growth Factor Receptors |
| Kinases |
| Phosphatases |
| Interpreting Signals |
| Further Generalizations |
| Dangers |
| Interpreting Experiments |
| Benefits |
| Afterword |
| Appendices |
| More on Cooperativity / Appendix 1： |
| Topogenic Sequences / Appendix 2： |
| All-or-none Effects and Levels of Gene Expression / Appendix 3： |
| Index |
図書
