Statistical physics of DNA : an introduction to melting, unzipping and flexibility of the double helix / Nikos Theodorakopoulos.

Format:

Book

Author/Creator:

Theodorakopoulos, Nikos, 1947- author.

Contributor:

World Scientific (Firm)

Rudolph G. Schmieder Fund.

Language:

English

Subjects (All):

DNA--Statistical methods.

DNA.

Statistics.

Physical Description:

1 online resource

polychrome

Place of Publication:

Singapore : World Scientific Publishing, [2020]

System Details:

text file

Contents:

Intro

Contents

Foreword

1. Statistical mechanics of simple polymer chain models

1.1 Definitions and notation. Key quantities

1.1.1 The freely jointed chain (FJC)

1.1.2 Local stiffness. Elastic energy. The wormlike chain

1.2 Statistical mechanics of the Kratky-Porod (KP) chain

1.2.1 The partition function

1.2.1.1 The limit of the freely jointed chain

1.2.2 Correlations. Persistence length

1.2.2.1 The limit of the freely jointed chain

1.2.3 Moments

1.2.4 Radius of gyration

1.2.4.1 The limit of the freely jointed chain

1.3 The end-to-end distance probability distribution

1.3.0.1 Closed form expressions for the f₆₆2

1.3.0.2 The limit of the freely jointed chain

1.4 The Gaussian chain

1.4.0.1 Numerical results for PN(r)

1.4.0.2 The probability of loop formation

1.5 Excluded volume effects

1.5.1 Characterization of the end-to-end distance distribution function

1.5.2 Critical exponents and observable quantities

1.5.3 Values of the critical exponents. Relationship to the self-avoiding walk problem

2. Entropic elasticity: the DNA force-extension relationship

2.1 Statistical mechanics of a KP chain in an external force field

2.2 The force-extension curve of the FJC

2.3 The force-extension curve of the WLC

2.3.1 Limiting form of the U matrix

2.3.2 The analogy with the quantum rotator

2.3.2.1 Limiting behavior at low fields

2.3.2.2 Limiting behavior at high fields

2.3.2.3 Arbitrary field strength

2.4 The force-extension relationship of the discrete KP model

2.5 The DNA force-extension relationship

2.5.1 Double-stranded DNA

2.5.2 Single-stranded DNA

3. DNA packaging and wrapping

3.1 Packaging of genomic material in a DNA virus

3.1.1 Shape and parameters

3.1.2 Bending vs. hydration energies. Packaging force. Pressure on capsid walls

3.1.2.1 Bending energy of an elastic ring

3.1.2.2 Bending energy of the packaged length

3.1.2.3 Hydration forces

3.1.2.4 Hydration energy of the packaged length

3.1.2.5 Hydration vs. bending. Packaging force

3.1.2.6 Energies

3.1.2.7 Pressure on the capsid walls

3.2 Wrapping in nucleosomes

3.2.1 Genomic packaging

3.2.2 Bending energies at the nucleosome core

3.2.3 Unwrapping the nucleosome

4. Scattering from DNA in solution

4.1 Elastic scattering from dilute solutions of macro-molecules

4.2 The structure factor of the Kratky-Porod chain

4.2.1 An intermediate result

4.2.2 Structure factor of the homogeneous KP chain

4.3 Structure factor of the freely jointed chain (FJC)

4.4 Structure factor of the WLC

4.4.1 The approach to the continuum limit

4.4.2 Numerical evaluation of the structure factor

4.5 Numerical evaluation of the end-to-end distance probability distribution function

4.6 Structure factors of simple geometrical molecules

Notes:

Electronic reproduction. Singapore Available via World Wide Web.

Online resource; title from PDF title page (EBSCO, viewed January 21, 2020).

Includes bibliographical references and index.

4.6.1 Structure factor of a spherical molecule

Local Notes:

Acquired for the Penn Libraries with assistance from the Rudolph G. Schmieder Fund.

Other Format:

Print version: Theodorakopoulos, Nikos Statistical Physics Of Dna: An Introduction To Melting, Unzipping And Flexibility Of The Double Helix

ISBN:

9811209545

9789811209543

Publisher Number:

99984227283

Access Restriction:

Restricted for use by site license.