Multiple aspects of DNA and RNA : from biophysics to bioinformatics / edited by Didier Chatenay ... [et al.].

Format:

Book

Conference/Event

Author/Creator:

Ecole d'été de physique théorique (Les Houches, Haute-Savoie, France), Corporate Author.

Contributor:

Chatenay, D.

Conference Name:

Ecole d'ete de physique theorique (Les Houches, Haute-Savoie, France) (82nd : 2004)

Series:

Les Houches

Language:

English

Subjects (All):

Nucleic acids--Congresses.

Nucleic acids.

Biophysics--Congresses.

Biophysics.

Computational biology--Congresses.

Computational biology.

Physical Description:

1 online resource (379 p.)

Edition:

1st ed.

Other Title:

Multiple aspects of deoxyribonucleic acid and ribonucleic acid

From biophysics to bioinformatics

At head of title: Ecole d'ete de physique des Houches, session LXXXII, 2-27 August 2004

Houches, session LXXXII, NATO ASI

Place of Publication:

Amsterdam : Elsevier, 2005.

Language Note:

English

Summary:

This book is dedicated to the multiple aspects, that is, biological, physical and computational of DNA and RNA molecules. These molecules, central to vital processes, have been experimentally studied by molecular biologists for five decades since the discovery of the structure of DNA by Watson and Crick in 1953. Recent progresses (e.g. use of DNA chips, manipulations at the single molecule level, availability of huge genomic databases...) have revealed an imperious need for theoretical modelling. Further progresses will clearly not be possible without an integrated understanding of all DNA an

Contents:

Previous sessions; Lecturers; Short lectures and seminar speakers; Organizers; Participants; Preface; Contents; DNA structure, dynamics and recognition; Introduction to the DNA double helix; Biophysical studies of DNA - structure and stability; DNA dynamics; Deformations of the double helix; DNA recognition; Introduction to non-Watson-Crick base pairs and RNA folding; Definitions; The annotation of non-Watson-Crick base pairs and of RNA motifs; RNA-RNA recognition motifs; Roles of RNA motifs in RNA-protein recognition; Conclusions; References; Regulation of transcription by RNA polymerase II

IntroductionDNA regulatory elements; Basal/general transcription factors; Sequence-specific DNA-binding factors; Chromatin and transcription; Conclusions and speculations; References; Basic concepts of statistical physics of polymers; Introduction to polymer physics; Fundamentals of physical viewpoint in polymer science; Flexibility of a polymer chain. Flexibility mechanisms; Rotational-isomeric flexibility mechanism; Persistent flexibility mechanism; Freely-jointed flexibility mechanism; Types of polymer molecules; Physical states of polymer materials; Polymer solutions

Single ideal polymer chainDefinition of ideal polymer chain; Size of ideal freely-jointed chain. Entangled coil; Size of ideal chain with fixed valency angle; Kuhn segment length of a polymer chain; Persistent length of a polymer chain; Stiff and flexible chains; Gaussian distribution for the end-to-end vector for ideal chain; High elasticity of polymer networks; The property of high elasticity; Elasticity of a single ideal chain; Elasticity of a polymer network (rubber); Viscoelasticity of entangled polymer fluids; Main properties of entangled polymer fluids; Viscosity of fluids

The property of viscoelasticityTheory of reptations; The method of gel-electrophoresis in application to DNA molecules; Gel permeation chromatography; References; The physics of DNA electrophoresis; Importance of DNA sorting in biology and how physics can help; Physical description of DNA; Electrophoretic force; DNA sequencing: gel electrophoresis of single-stranded DNA; Reptative dynamics; Biased reptation; Repton model; Strategies for DNA sequencing; Gel electrophoresis of long double-stranded DNA molecules; Complex dynamics in constant fields

Pulsed-field gel electrophoresis: separation of restriction fragmentsDifficulty of separating very large molecules; Obstacle courses on microchips; Collision of a DNA molecule with an obstacle; Efficient pulsed-field fractionation in silicon arrays; Continuous separation in asymmetric pulsed fields; Asymmetric sieves for sorting DNA; Rapid continuous separation in a divided laminar flow; Summary; References; Single-molecule studies of DNA mechanics and DNA/protein interactions; Introduction; The interest of physicists for DNA; Ease of handling; DNA as a model polymer

Introduction to single-molecule DNA manipulation techniques

Notes:

"Euro Summer School, NATO Advanced Study Institute, Ecole Thematique du CNRS."

Includes bibliographical references.

ISBN:

1-280-63853-2

9786610638536

0-08-046154-9

OCLC:

476003217