The Yeast Two Hybrid System
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Proteomics And Protein Protein Interactions
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Author : Gabriel Waksman
language : en
Publisher: Springer Science & Business Media
Release Date : 2005-12-21
Proteomics And Protein Protein Interactions written by Gabriel Waksman and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2005-12-21 with Computers categories.
The rapidly evolving field of protein science has now come to realize the ubiquity and importance of protein-protein interactions. It had been known for some time that proteins may interact with each other to form functional complexes, but it was thought to be the property of only a handful of key proteins. However, with the advent of high throughput proteomics to monitor protein-protein interactions at an organism level, we can now safely state that protein-protein interactions are the norm and not the exception. Thus, protein function must be understood in the larger context of the various binding complexes that each protein may form with interacting partners at a given time in the life cycle of a cell. Proteins are now seen as forming sophisticated interaction networks subject to remarkable regulation. The study of these interaction networks and regulatory mechanism, which I would like to term "systems proteomics," is one of the thriving fields of proteomics. The bird-eye view that systems proteomics offers should not however mask the fact that proteins are each characterized by a unique set of physical and chemical properties. In other words, no protein looks and behaves like another. This complicates enormously the design of high-throughput proteomics methods. Unlike genes, which, by and large, display similar physico-chemical behaviors and thus can be easily used in a high throughput mode, proteins are not easily amenable to the same treatment. It is thus important to remind researchers active in the proteomics field the fundamental basis of protein chemistry. This book attempts to bridge the two extreme ends of protein science: on one end, systems proteomics, which describes, at a system level, the intricate connection network that proteins form in a cell, and on the other end, protein chemistry and biophysics, which describe the molecular properties of individual proteins and the structural and thermodynamic basis of their interactions within the network. Bridging the two ends of the spectrum is bioinformatics and computational chemistry. Large data sets created by systems proteomics need to be mined for meaningful information, methods need to be designed and implemented to improve experimental designs, extract signal over noise, and reject artifacts, and predictive methods need to be worked out and put to the test. Computational chemistry faces similar challenges. The prediction of binding thermodynamics of protein-protein interaction is still in its infancy. Proteins are large objects, and simplifying assumptions and shortcuts still need to be applied to make simulations manageable, and this despite exponential progress in computer technology. Finally, the study of proteins impacts directly on human health. It is an obvious statement to say that, for decades, enzymes, receptors, and key regulator proteins have been targeted for drug discovery. However, a recent and exciting development is the exploitation of our knowledge of protein-protein interaction for the design of new pharmaceuticals. This presents particular challenges because protein-protein interfaces are generally shallow and interactions are weak. However, progress is clearly being made and the book seeks to provide examples of successes in this area.
The Yeast Two Hybrid System
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Author : Paul L. Bartel
language : en
Publisher:
Release Date : 1997
The Yeast Two Hybrid System written by Paul L. Bartel and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 1997 with Science categories.
Biologists have already identified thousands of new gene sequences, and genome sequencing efforts are speeding up the discovery process even further. With this explosion of sequence information comes the need to understand how genes work in concert in order to fulfill the cells functions. The yeast two-hybrid system--used to identify protein-protein interactions--is one of the most powerful and versatile methods for characterizing a protein's function. It has become an essential tool for both academic researchers and those in biotechnology and pharmaceutical companies. This volume presents work by pioneers in the field and is the first publication devoted solely to the yeast two-hybrid system. It includes detailed protocols, practical advice on troubleshooting, and suggestions for future development. In addition, it explains how to construct an activation domain hybrid library, how to identify mutations that disrupt an interaction, and how to use the system in mammalian cells. Many of the contributors have developed new applications and variations of the technique. Chapter topics include characterizing hormone/receptor complexes, identifying peptide ligands, analyzing interactions mediated by protein modifications, and dissecting the cell cycle and other complex genetic networks. The Yeast Two-Hybrid System is the single complete resource for scientists interested in this powerful research method.
Circadian Rhythms
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Author : Ezio Rosato
language : en
Publisher: Springer Science & Business Media
Release Date : 2008-02-04
Circadian Rhythms written by Ezio Rosato and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2008-02-04 with Science categories.
This is an in-depth examination of circadian biology, presented by leading researchers in the field. Methods for analysis of rhythmic readouts in select model organisms are included. This cutting-edge collection of protocols is adaptable for research at every level, and represents the huge strides that chronobiologists have made over the past two decades. Circadian biologists at all research levels will realize tremendous benefit from this extraordinary collection.
Dengue Virus
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Author : Ronaldo Mohana-Borges
language : en
Publisher: Humana
Release Date : 2022-11-12
Dengue Virus written by Ronaldo Mohana-Borges and has been published by Humana this book supported file pdf, txt, epub, kindle and other format this book has been release on 2022-11-12 with Medical categories.
This detailed volume explores various aspects of the dengue virus and its four serotypes (DENV1-4). Beginning with a section on protocols to produce DENV and its proteins that are fundamental for many biophysical, biochemical, immunological, and cellular studies, the book continues by covering protocols to study the interactions between DENV and cellular proteins, DENV immunopathogenesis and diagnosis, as well as recent advances in animal models that can be used in studies of DENV immunopathogenesis and vaccine development. Written for the highly successful Methods in Molecular Biology series, 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 practical, Dengue Virus: Methods and Protocols serves as an ideal guide for researchers attempting to further understand this critical threat to worldwide public health.
Two Hybrid Systems
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Author : Paul N. MacDonald
language : en
Publisher: Springer Science & Business Media
Release Date : 2008-02-03
Two Hybrid Systems written by Paul N. MacDonald and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2008-02-03 with Science categories.
Paul N. MacDonald has assembled a collection of powerful molecular tools for examining and characterizing protein-protein, protein-DNA, and protein-RNA interactions. The techniques range from the most basic (introducing plasmids into yeasts, interaction assays, and recovering the plasmids from yeast), to the most advanced alternative strategies (involving one-hybrid, split two-hybrid, three-hybrid, membrane recruitment systems, and mammalian systems). Methods are also provided for dealing with the well-known problem of artifacts and false positives and for identifying the interacting partners in important biological systems, including the SMAD and nuclear receptor pathways. To ensure ready reproducibility and robust results, each technique is described in step-by-step detail by researchers who employ it regularly.
Budding Yeast
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Author : Brenda Andrews
language : en
Publisher:
Release Date : 2016
Budding Yeast written by Brenda Andrews and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 2016 with Science categories.
Over the past century, studies of the budding yeast Saccharomyces cerevisiae have helped to unravel principles of nearly every aspect of eukaryotic cell biologyfrom metabolism and molecular genetics to cell division and differentiation. Thanks to its short generation time, ease of genetic manipulation, and suitability for high-throughput studies, yeast remains the focus of research in a vast number of laboratories worldwide. This laboratory manual provides a comprehensive collection of experimental procedures that continue to make budding yeast an informative model. The contributors describe methods for culturing and genetically modifying yeast, strategies and tools (e.g., gene deletion collections) for functional analyses, approaches for characterizing cell structure and morphology, and techniques to probe the modifications and interactions of various cellular constituents (e.g., using one- and two-hybrid screens). Strategies for studying metabolomics, complex traits, and evolution in yeast are also covered, as are methods to isolate and investigate new strains of yeast from the wild. Several additional chapters are devoted to bioinformatics tools and resources for yeast biology (e.g., the Saccharomyces Genome Database). This manual is therefore an essential resource for all researchers, from graduate level upward, who use budding yeast to explore the intricate workings of cells.
Plant Virology Protocols
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Author : Gary Foster
language : en
Publisher: Humana Press
Release Date : 2010-10-28
Plant Virology Protocols written by Gary Foster and has been published by Humana Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2010-10-28 with Science categories.
Following the considerable success of the first edition of Plant Virology Protocols, this exciting new edition covers the many new techniques that are now applied to the examination and understanding of plant viruses. Each section presents the most novel methods and step-by-step reproducible laboratory protocols to allow researchers more effective approaches to study plant viruses. This updated book will prove indispensable to laboratory investigators studying plant viruses.
Molecular Biology Of The Cell
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Author :
language : en
Publisher:
Release Date : 2004
Molecular Biology Of The Cell written by and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 2004 with Cells categories.
Prokaryotic Systems Biology
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Author : Nevan J. Krogan, PhD
language : en
Publisher: Springer
Release Date : 2019-03-21
Prokaryotic Systems Biology written by Nevan J. Krogan, PhD and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2019-03-21 with Science categories.
This book focuses on innovative experimental and computational approaches for charting interaction networks in bacterial species. The first part of the volume consists of nine chapters, focusing on biochemical and genetics and genomics approaches including yeast two hybrid, metagenomics, affinity purification in combination with mass spectrometry, chromatin-immunoprecipitation coupled with sequencing, large-scale synthetic genetic screens, and quantitative-based mass spectrometry strategies for mapping the bacterial physical, functional, substrate, and regulatory interaction networks needed for interpreting biological networks, inferring gene function, enzyme discovery, and identifying new drug targets. The second part comprises five chapters, covering the network of participants for protein folding and complex enzyme maturation. It also covers the structural approaches required to understand bacterial intramembrane proteolysis and the structure and function of bacterial proteins involved in surface polysaccharides, outer membrane, and envelope assembly. This volume concludes with a focus on computational and comparative genomics approaches, especially network-based methods for predicting physical or functional interactions, and integrative analytical approaches for generating more reliable information on bacterial gene function. This book provides foundational knowledge in the understanding of prokaryotic systems biology by illuminating how bacterial genes f unction within the framework of global cellular processes. The book will enable the microbiology community to create substantive resources for addressing many pending unanswered questions, and facilitate the development of new technologies that can be applied to other bacterial species lacking experimental data.
Receptor Signal Transduction Protocols
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Author : Gary B. Willars
language : en
Publisher: Springer Science & Business Media
Release Date : 2008-02-03
Receptor Signal Transduction Protocols written by Gary B. Willars and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2008-02-03 with Science categories.
This second edition of Receptor Signal Transduction Protocols not only has a new editor, but also a greater focus on G-protein-coupled receptors, their properties per se, and their coupling to immediate downstream binding partners—principally, although not exclusively, the heterotrimeric G-proteins. The new edition combines updates of key chapters from the first edition, as well as a large number of new contributions covering key methodologies that have emerged, or been extended to receptor/G-protein research, in the past 5–6 years. In common with many fields, the range of methods used to assess the first steps in signal transduction are continually expanding and methods that might have been considered too specialized five years ago are now sufficiently routine to be included here. Unlike many research areas, where off-the-shelf kits have made research basically foolproof, signal transduction research still requires considerable expertise, and the methods included here are provided by internationally recognized experts in their fields who have many years of experience using the methods they describe. This not only allows each chapter to impart a clear description of the method, but also to furnish invaluable troubleshooting advice for when things do not go entirely according to plan. Once again we would like to thank the Series Editor, John Walker, for the invitation to compile this second edition, and to express our gratitude to all of the authors who have enthusiastically agreed to provide the uniformly excellent contributions.