Progress in nucleic acid research and molecular biology. V.82 /

Drosophila Orthologues to Human Disease Genes: An Update on Progress Sergey Doronkin and Lawrence T. Reiter p. 1
I Introduction p. 2
II Neurological Disease p. 2
III Drosophila in Cancer Research p. 5
IV Tumorigenesis, Neuroprotection, and Fortitude: The Hypoxic Response in Drosophila p. 7
V Blood, Immune Response, and Infectious Disease p. 10
VI Future Candidates p. 24
References p. 24
Applications of Fluorescence Correlation Spectroscopy to the Study of Nucleic Acid Conformational Dynamics Kaushik Gurunathan and Marcia Levitus p. 33
I Introduction: Fluorescence and Energy Transfer p. 34
II Fluorescence Correlation Spectroscopy p. 37
III Conformational Dynamics of Nucleic Acids p. 46
IV Experimental Techniques p. 60
V Concluding Remarks p. 65
References p. 66
RNA Structure and Modeling: Progress and Techniques Dinggeng Chai p. 71
I Introduction p. 72
II Chemical and Enzymatic Methods p. 78
III Physical Approaches to Study RNA Folding and Structure p. 82
IV A Molecular Dynamic View of RNA Molecules p. 87
V Computer-Assisted Modeling p. 89
VI Conclusion p. 93
References p. 93
DNA Polymerase [epsilon]: A Polymerase of Unusual Size (and Complexity) Zachary F. Pursell and Thomas A. Kunkel p. 101
I Introduction p. 102
II Pol [epsilon] Structure p. 104
III Physical and Functional Interactions of Pol [epsilon] p. 109
IV Biochemical Properties of Pol [epsilon] p. 111
V Pol [epsilon] in DNA Replication p. 114
VI The Role of Pol [epsilon] in Checkpoint Control p. 119
VII Pol [epsilon] Involvement in Regulating Chromatin States p. 121
VIII Pol [epsilon] Relationship with Chromatin Remodeling Complexes p. 123
IX The Roles of Pol [epsilon] in Excision Repair of DNA Damage p. 126
X Pol [epsilon] in Recombination p. 129
XI Schizosaccharomyces pombe Pol [epsilon] p. 131
XII Xenopus Pol [epsilon] p. 133
XIII Concluding Remarks p. 134
References p. 134
Site-directed Spin Labeling Studies on Nucleic Acid Structure and Dynamics Glenna Z. Sowa and Peter Z. Qin p. 147
I Overview p. 148
II Basic Physics Underlying SDSL p. 150
III Site-Specific Attachment of Nitroxides to Nucleic Acids p. 153
IV Distance Measurements Using SDSL p. 162
V Site-Specific Structural and Dynamic Information from a Single-Labeled Nitroxide p. 172
VI Beyond Distance Measurements and Nitroxide Dynamics Analysis p. 187
VII Future Directions p. 189
References p. 190
Molecular Computing with Deoxyribozymes Milan N. Stojanovic p. 199
I Introduction to Molecular Computing by Deoxyribozymes p. 199
II Deoxyribozyme-Based Logic Gates p. 200
III Deoxyribozyme-Based Circuits for Arithmetical Operations p. 204
IV Deoxyribozyme-Based Automata: Circuits that Play Tic-Tac-Toe p. 206
V Deoxyribozyme-Based Control of Downstream Elements p. 210
VI Expanding Molecular Logic to Nanoparticles p. 213
VII Other Approaches to Autonomous Computing with DNA p. 215
VIII Conclusions and Future Visions p. 215
References p. 217
Molecular Colony Technique: A New Tool for Biomedical Research and Clinical Practice Alexander B. Chetverin and Helena V. Chetverina p. 219
I Introduction p. 220
II Detection of Airborne RNAs p. 221
III Monitoring Reactions Between Single Molecules p. 225
IV Cell-Free Gene Cloning p. 228
V Molecular Colonies as a Precellular Form of Life p. 233
VI Molecular Colony Diagnostics p. 235
VII Gene and Gene Expression Analysis p. 241
VIII Opportunities Provided by the Molecular Colony Technology p. 247
References p. 249
Index p. 257