Nanobiophysics : fundamentals and applications / edited by Victor A. Karachevtsev. -- Singapore : Pan Stanford Publishing, c2016. – (71.2289/N186n)

Contents

1. Quantum-Mechanical Investigations of Noncovalent Interactions of Carbon Materials                        1

1.1  Introduction

1.2  Methods

1.3  Physisorption of Nucleic Acid Bases on Carbon Nanotubes and Graphene

1.4  Aromatic Amino Acids

1.5  n-Conjugated Hydrocarbons

1.6  Binding of Charged Species

1.7  Conclusions

2. Hybrids of siRNA with Carbon Nanotubes as RNA Interference Instruments

2.1  Introduction

2.2  Hybrids of siRNA with Carbon Nanotubes Formation and Properties

2.3  Cellular Uptake of CNTs and Their Hybrids with Nucleic Acids

2.4  siRNA Delivery in vitro

2.5  siRNA Delivery in vivo

2.6  Conclusions and Perspectives

3. Single-Walled Carbon Nanotubes Interfaced with DNA/RNA

3.1  Introduction

3.2  SWNT:DNA Hybrids: Structures and Energy Interaction

3.3  Encapsulation of DNA inside Nanotube

3.4  DNA Sequencing by Translocation through SWNT Nanopores

3.5  Recognition Ability of DNA for Carbon Nanotubes

3.6  Carbon Nanotube: DNA Nanoarchitectures

3.7  Summary and Future Prospects

4. Nucleosome as an Example of a Nanosystem Formation: Structural Dynamics of Nucleosomal DNA               95

4.1  Introduction                                       96

4.2  Nucleosome as the First Level ofDNA Compactization  97

4.3  Nucleosome Formation                            104

4.4  The Structural Features of Nucleosomal DNA         109

4.5  Structural Dynamics ofNucleosomal DNA Sugar-Phosphate Backbone

4.6  Concluding Remarks

5. Structure Diagnostics of Biorelevant Associates and Complexes in Liquid Nanosystems by Small-Angle Scattering

5.1  Introduction

5.2  Small-Angle Scattering as a Powerful Method for Structure Diagnostic of Liquid Nanosystems

5.3  Structure and Interaction in Magnetic Fluids

5.4  Internal Structure of Protein Amyloid Solutions

5.5  Structure Characterization of Magnetoferritin Aqueous Systems

5.6  Conclusions

6. Liquid Crystal Ordering and Nanostructuring in Model Lipid Membranes

6.1  Introduction

6.2  Lipid Bilayer as the Structural-Functional Base of Cell Membranes

6.3  Effects of Non-Lipid Components on the Phase State of Model Phospholipid Membranes

6.4  Effects of Ion Medium on Liquid Crystal Phase Transitions of Phospholipid Membranes

6.5  Testing of the ]oint Action of Drugs by Their Effects on Model Phospholipid Membranes

6.6  Conclusions

7. Interactions of Biologically Active Redox-Sensitive Dyes with Nanomaterials: Mass Spectrometric Diagnostics                                       193

7.1  Introduction

7.2  Harnessing of Redox Properties of Dyes in Functioning of Nanomaterials and Nanodevices

7.3  Redox-Active Dyes

7.4  Mass Spectrometry in Studies of Nanomaterials

7.5  Observation of Reduction Reactions of Dyes under Mass Spectrometric Conditions

7.6  Reduction oflmidazophenzine Dyes under Mass Spectrometric Conditions

7.7  Interactions oflmidazophenazine Dyes Derivatives with Nanostructured Surfaces

7.8  Incorporation of Dyes into Surface Nanolayers       222

7.9  Conclusions                                    223

8. Nanosized Complexes of Bioorganic Molecules in Low-Temperature Matrices

8.1  Introduction

8.2  Matrix Isolation Method: Opportunities and Limitations

8.3  The Formation of Molecular Complexes in Matrix

8.4  Conclusions

9. Kinetics Framework for Nanoscale Description of Environment-Induced Transition Processes in Biomolecular Structures                             267

9.1  Introduction                                     268

9.2  Master Equation for Averaged Populations           275

9.3  Transition Rate Constants                          280

9.4  Fractional Cooperativity of Biomolecular Structures  283

9.5  Conclusions                                      286

10. Polymer-Mediated Interactions between Nanoparticles and Their Effect on the Coagulation-Fragmentation in Polymer Composites

10.1 Introduction

10.2 Self-Consistent Field Theory of Polymer-Mediated Interactions

10.3 Effect of the Polymer-Mediated Interactions on the Rates of Colloid Coagulation in the Presence of Adsorbing and Non-Adsorbing Polymers

10.4 Effect of Polymer-Mediated Interactions on the Stability of Filler Agglomerates in Rubbers

10.5 Conclusions

11. Point-Contact Sensors and Their Medical Applications for Breath Analysis: A Review

11.1 Introduction

11.2 Fundamentals of the Point-Contact Sensor Development

11.3 Methods for Producing Point-Contact Sensors

11.4 A New Approach to Sensor Analysis of Exhaled Breath Based on the Point-Contact Gas-Sensitive Effect

11.5 Development of Methods of Noninvasive Diagnosis by Point-Contact Sensors

11.6 Conclusions

12. Nanophotonic Sensor for Polycyclic Aromatic Hydrocarbon Detection

12.1 Introduction

12.2 Chemical Carcinogenesis and Metabolism of Benzo[a]pyrene

12.3 Analytical Methods of Benzpyrene Detection

12.4 Physico-Chemical Properties of Semiconductor Quantum Dots as Detector Elements

12.5 The Basics of Physical Processes in a Nanophotonic Sensor during Assay

12.6 Quantum-Chemical Calculation of Benzo [a] pyrene Electronic Parameters and Optimal Size of the Emitting Spherical Semiconductor Quantum Dot's Nucleus Determination

12.7 Electrochemical Investigation of Semiconductor Quantum Dots

12.8 Spectral Investigation of Benzo[a]pyrene Solution and Colloidal Semiconductor Quantum Dots

12.9 The Method of Sensor's Working Electrode Modification

12.10 Nanophotonic Sensor for Polycyclic Aromatic Hydrocarbon Detection

12.11  Nanophotonic Sensor for Polycyclic Aromatic Hydrocarbons Detection Testing on Model Solutions                                       404

Index