The Nuclear Matrix and Spatial Organization of Chromosomal DNA Domains


Book Description

Discusses the problem of structural-functional organization of eukaryotic cell nuclei with special emphasis on the genome spatial organization and functioning. The opening chapters describe the nuclear matrix and the fate of its components in the course of mitosis. In the next eight chapters the organization of chromosomal DNA into large loops and




Chromosome Banding


Book Description




Monte Carlo Simulation in Statistical Physics


Book Description

When learning very formal material one comes to a stage where one thinks one has understood the material. Confronted with a "realiife" problem, the passivity of this understanding sometimes becomes painfully elear. To be able to solve the problem, ideas, methods, etc. need to be ready at hand. They must be mastered (become active knowledge) in order to employ them successfully. Starting from this idea, the leitmotif, or aim, of this book has been to elose this gap as much as possible. How can this be done? The material presented here was born out of a series of lectures at the Summer School held at Figueira da Foz (Portugal) in 1987. The series of lectures was split into two concurrent parts. In one part the "formal material" was presented. Since the background of those attending varied widely, the presentation of the formal material was kept as pedagogic as possible. In the formal part the general ideas behind the Monte Carlo method were developed. The Monte Carlo method has now found widespread appli cation in many branches of science such as physics, chemistry, and biology. Because of this, the scope of the lectures had to be narrowed down. We could not give a complete account and restricted the treatment to the ap plication of the Monte Carlo method to the physics of phase transitions. Here particular emphasis is placed on finite-size effects.




The Nuclear Envelope


Book Description

This volume provides a wide range of protocols used in studying the nuclear envelope, with special attention to the experimental adjustments that may be required to successfully investigate this complex organelle in cells from various organisms. The Nuclear Envelope: Methods and Protocols is divided into five sections: Part I – Nuclear Envelope Isolation; Part II – Nuclear Envelope Protein Interactions, Localization, and Dynamics; Part III – Nuclear Envelope Interactions with the Cytoskeleton; Part IV – Nuclear Envelope-Chromatin Interactions; and Part V – Nucleo-Cytoplasmic Transport. Many of the modifications discussed in this book have only been circulated within laboratories that have conducted research in this field for many years. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Cutting edge and thorough, The Nuclear Envelope: Methods and Protocols is a timely resource for researchers who have joined this dynamic and rapidly growing field.




Scaling Concepts in Polymer Physics


Book Description

The first stage of the physics of long, flexible chains was pioneered by eminent scientists such as Debye, Kuhn, Kramers, and Flory, who formulated the basic ideas. In recent years, because of the availability of new experimental and theoretical tools, a second stage of the physics of polymers has evolved. In this book, a noted physicist explains the radical changes that have taken place in this exciting and rapidly developing field. Pierre-Gilles de Gennes points out the three developments that have been essential for recent advances in the study of large-scale conformations and motions of flexible polymers in solutions and melts. They are the advent of neutron-scattering experiments on selectively deuterated molecules; the availability of inelastic scattering of laser light, which allows us to study the cooperative motions of the chains; and the discovery of an important relationship between polymer statistics and critical phenomena, leading to many simple scaling laws. Until now, information relating to these advances has not been readily accessible to physical chemists and polymer scientists because of the difficulties in the new theoretical language that has come into use. Professor de Gennes bridges this gap by presenting scaling concepts in terms that will be understandable to students in chemistry and engineering as well as in physics.




Nuclear Matrix


Book Description

Research on the nuclear matrix has grown enormously since Bereney and Coffey first reported its isolation and initial characterization in 1974. Since then, more than 1000 papers have been published on the subject by numerous workers around the world. This is the first book devoted to reviewing the major developments in this growing field. Key Features * The chapters cover a variety of topics, including: * Isolation of the nuclear matrix * Nuclear structure morphology in situ * Structural domains of the nuclear matrix and its components * Biochemistry and molecular biology of the matrix proteins and associated DNA and RNA * Functional properties associated with the nuclear matrix * DNA replication * Transcription * RNA splicing * Transcription regulation * Intranuclear and nucleocytoplasmic transport and targeting * Cell cycle regulation




Hi-C Data Analysis


Book Description

This volume details a comprehensive set of methods and tools for Hi-C data processing, analysis, and interpretation. Chapters cover applications of Hi-C to address a variety of biological problems, with a specific focus on state-of-the-art computational procedures adopted for the data analysis. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Hi-C Data Analysis: Methods and Protocols aims to help computational and molecular biologists working in the field of chromatin 3D architecture and transcription regulation.




Nuclear Architecture and Dynamics


Book Description

Nuclear Architecture and Dynamics provides a definitive resource for (bio)physicists and molecular and cellular biologists whose research involves an understanding of the organization of the genome and the mechanisms of its proper reading, maintenance, and replication by the cell. This book brings together the biochemical and physical characteristics of genome organization, providing a relevant framework in which to interpret the control of gene expression and cell differentiation. It includes work from a group of international experts, including biologists, physicists, mathematicians, and bioinformaticians who have come together for a comprehensive presentation of the current developments in the nuclear dynamics and architecture field. The book provides the uninitiated with an entry point to a highly dynamic, but complex issue, and the expert with an opportunity to have a fresh look at the viewpoints advocated by researchers from different disciplines. - Highlights the link between the (bio)chemistry and the (bio)physics of chromatin - Deciphers the complex interplay between numerous biochemical factors at task in the nucleus and the physical state of chromatin - Provides a collective view of the field by a large, diverse group of authors with both physics and biology backgrounds




Genome Structure and Function


Book Description

Proceedings of the NATO Advanced Study Institute on Genome Structure and Function, held in Marciana Marina, Elba, Italy, 13-23 June 1996




Essential Genetics


Book Description

Updated to reflect the latest discoveries in the field, the Fifth Edition of Hartl's classic text provides an accessible, student-friendly introduction to contemporary genetics. Designed for the shorter, less comprehensive introductory course, Essential Genetics: A Genomic Perspective, Fifth Edition includes carefully chosen topics that provide a solid foundation to the basic understanding of gene mutation, expression, and regulation. New and updated sections on genetic analysis, molecular genetics, probability in genetics, and pathogenicity islands ensure that students are kept up-to-date on current key topics. The text also provides students with a sense of the social and historical context in which genetics has developed. The updated companion web site provides numerous study tools, such as animated flashcards, crosswords, practice quizzes and more! New and expanded end-of-chapter material allows for a mastery of key genetics concepts and is ideal for homework assignments and in-class discussion.