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Author : Beilin Zhang
Publisher :
ISBN 13 :
Total Pages : 322 pages
Book Rating : 4.:/5 (89 download)
Download or read book Development of the Yeast Three-hybrid System in Studying RNA-protein Interactions written by Beilin Zhang and published by . This book was released on 1999 with total page 322 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Author : Paul L. Bartel
Publisher : Oxford University Press, USA
ISBN 13 : 9780195109382
Total Pages : 362 pages
Book Rating : 4.1/5 (93 download)
Download or read book The Yeast Two-hybrid System written by Paul L. Bartel and published by Oxford University Press, USA. This book was released on 1997 with total page 362 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume, part of the Advances in Molecular Biology series, 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 illustrates 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.
Author : Kiyoshi Nagai
Publisher : Oxford University Press, USA
ISBN 13 :
Total Pages : 302 pages
Book Rating : 4.3/5 (91 download)
Download or read book RNA-protein Interactions written by Kiyoshi Nagai and published by Oxford University Press, USA. This book was released on 1994 with total page 302 pages. Available in PDF, EPUB and Kindle. Book excerpt: The study of RNA-protein interactions is crucial to understanding the mechanisms and control of gene expression and protein synthesis. The realization that RNAs are often far more biologically active than was previously appreciated has stimulated a great deal of new research in this field. Uniquely, in this book, the world's leading researchers have collaborated to produce a comprehensive and current review of RNA-protein interactions for all scientists working in this area. Timely, comprehensive, and authoritative, this new Frontiers title will be invaluable for all researchers in molecular biology, biochemistry and structural biology.
Author : Christopher W.J. Smith
Publisher : Oxford University Press, UK
ISBN 13 : 0191591629
Total Pages : 370 pages
Book Rating : 4.1/5 (915 download)
Download or read book RNA-Protein Interactions : A Practical Approach written by Christopher W.J. Smith and published by Oxford University Press, UK. This book was released on 1998-07-09 with total page 370 pages. Available in PDF, EPUB and Kindle. Book excerpt: RNA-protein interactions play a fundamental role in gene expression and protein synthesis. Recent research into the role of RNA in cells has elucidated many more vital interactions with proteins. This book provides an up-to-date and comprehensive guide to a wide range of laboratory procedures to investigate the interactions between RNA and proteins. - ;RNA-protein interactions play a vital role in gene transcription and protein expression. Interactions such as the synthesis of mRNA by RNA polymerases, to the essential modification of RNA by the proteins of the spliceosome complex, and the highly catalytic action of the ribosome in protein synthesis, are established as being fundamental to the function of RNA. Recent research into, for example, the role of RNA as a catalyst, has elucidated many more interactions with proteins that are vital to cell function. RNA - Protein Interactions: A Practical Approach provides a clear and comprehensive guide to the experimental procedures used in studying RNA - protein interactions. The approaches covered range from those initially used to detect a novel RNA-protein interaction, various biochemical and genetic approaches to purifying and cloning RNA binding proteins, through to methods for an in depth analysis of the structural basis of the interaction. The volume includes a number of procedures that have not previously been covered in this type of manual. These include the production of site-specifically modified RNAs by enzymatic and chemical methods and in vivo screening for novel RNA - protein interactions in yeast and E. coli . This is the first volume to gather in one place this wide array of approaches for studying RNA - protein interactions. As is customary for the Practical Approach series, the writing is characterized by a clear explanatory style with many detailed protocols. This informative book will be a valuable aid to laboratory workers in biochemistry and molecular biology - graduate students, postdoctoral and senior scientists - whose research encompasses this field. -
Author : Nikoleta Georgieva Tsvetanova
Publisher :
ISBN 13 :
Total Pages : pages
Book Rating : 4.:/5 (78 download)
Download or read book Characterization of Novel RNA-protein Regulatory Interactions in Saccharomyces Cerevisiae written by Nikoleta Georgieva Tsvetanova and published by . This book was released on 2012 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt: The dynamic processes of a living cell depend on the coordinated temporal and spatial regulation of the many steps of gene expression. Transcription regulation is one control point of gene expression, and a gene can also be regulated post-transcriptionally, by RNA-binding proteins (RBPs). The biological significance of post-transcriptional regulation is especially evident in cases, where RBP binding controls the temporal precision of suppression and activation of important cellular stress responses. We developed a proteome-wide experimental approach for in vitro identification of novel RBPs and RNA-protein interactions in Saccharomyces cerevisiae. We found 12 novel RNA-binding proteins, the majority of which, surprisingly, are currently annotated as enzymes with roles in metabolic processes. We next used this proteomic approach to screen for proteins specifically interacting with the HAC1 RNA, which mediates activation of the yeast unfolded protein response (UPR). We found that HAC1 associated reproducibly with four small yeast GTPases, three of which are of the Ypt family of ras-GTPases. We further characterized one of them, the yeast Rab1 homolog Ypt1, and showed that Ypt1 interacted with unspliced HAC1 RNA only in the absence of ER stress. Selective Ypt1 depletion increased HAC1 RNA stability and expression, and also affected timely recovery from UPR. By developing and applying a novel proteomic approach for studying RNA-protein interactions, we established Ypt1 as an important regulator of HAC1 expression and UPR signaling. This unexpected protein-RNA interaction provides a biochemical mechanism for coordinating the key cellular processes of vesicle trafficking and ER homeostasis.
Author : Roland K. Hartmann
Publisher : John Wiley & Sons
ISBN 13 : 3527650547
Total Pages : 1370 pages
Book Rating : 4.5/5 (276 download)
Download or read book Handbook of RNA Biochemistry written by Roland K. Hartmann and published by John Wiley & Sons. This book was released on 2015-10-06 with total page 1370 pages. Available in PDF, EPUB and Kindle. Book excerpt: The second edition of a highly acclaimed handbook and ready reference. Unmatched in its breadth and quality, around 100 specialists from all over the world share their up-to-date expertise and experiences, including hundreds of protocols, complete with explanations, and hitherto unpublished troubleshooting hints. They cover all modern techniques for the handling, analysis and modification of RNAs and their complexes with proteins. Throughout, they bear the practising bench scientist in mind, providing quick and reliable access to a plethora of solutions for practical questions of RNA research, ranging from simple to highly complex. This broad scope allows the treatment of specialized methods side by side with basic biochemical techniques, making the book a real treasure trove for every researcher experimenting with RNA.
Author : Lynne E. Maquat
Publisher : Academic Press
ISBN 13 : 0080923321
Total Pages : 463 pages
Book Rating : 4.0/5 (89 download)
Download or read book RNA Turnover in Eukaryotes: Analysis of Specialized and Quality Control RNA Decay Pathways written by Lynne E. Maquat and published by Academic Press. This book was released on 2011-09-02 with total page 463 pages. Available in PDF, EPUB and Kindle. Book excerpt: Specific complexes of protein and RNA carry out many essential biological functions, including RNA processing, RNA turnover, and RNA folding, as well as the translation of genetic information from mRNA into protein sequences. Messenger RNA (mRNA) decay is now emerging as an important control point and a major contributor to gene expression. Continuing identification of the protein factors and cofactors and mRNA instability elements responsible for mRNA decay allow researchers to build a comprehensive picture of the highly orchestrated processes involved in mRNA decay and its regulation. Covers the nonsense-mediated mRNA decay (NMD) or mRNA surveillance pathway Expert researchers introduce the most advanced technologies and techniques Offers step-by-step lab instructions, including necessary equipment and reagents
Author : Linh Nguyen
Publisher :
ISBN 13 :
Total Pages : 0 pages
Book Rating : 4.:/5 (135 download)
Download or read book Investigation of Experimental and Computational Approaches to Optimize the Bacterial Three-Hybrid Assay written by Linh Nguyen and published by . This book was released on 2022 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Post-transcriptional gene regulation by non-coding small regulatory RNAs (sRNAs) plays an important role in bacterial stress responses and virulence. In many bacteria, the binding of sRNAs to their target mRNAs at or near the ribosome binding sites is often facilitated by protein chaperones such as Hfq or ProQ. In order to elucidate the molecular mechanisms of RNA-protein interactions, an in vivo genetic approach, the bacterial three-hybrid (B3H) assay, was developed to detect the binding of RNA with multiple RNA chaperones by connecting the strength of an RNA-protein interaction to the expression of a reporter gene. Despite the promise of the B3H system and its success in detecting many high-affinity interactions, low signal-to-noise for other RNA-protein interactions currently limits the broader utility of the assay. My study aims to optimize the hybrid RNA component of the assay to improve the breadth of detectable B3H interactions. To this end, I have focused on designing new hybrid RNA constructs with the addition of a GC-clamp - a short insert of guanines (G) and cytosines (C) flanking a region of interest - to promote proper folding and optimal display of RNA. My results demonstrate the potential of the short GC-clamp in improving the B3H detection of a broader range of sRNA-Hfq interactions. I have also explored the contributions of different components of the hybrid mRNA construct, including a stop codon, a short GC clamp and a trpA terminator, to mRNA expression level with the hope to understand how mRNA degradation might hinder the B3H detection of mRNA-Hfq interactions. To prioritize future experimental optimization, it is also imperative to understand this genetic toolbox from a systematic perspective. Using COPASI, a software package specializing in setting up and analyzing kinetic models, I have created a mathematical model of the B3H system and used the information from model simulations to predict the signal for RNA-protein interactions and guide further optimizing strategies. The work I present here represents significant progress towards increasing the sensitivity and generalizability of the B3H assay to study bacterial RNA-protein interactions which are implicated in many important processes in bacteria such as adaptation to stress, biofilm formation, virulence, and antibiotic resistance.
Author :
Publisher : Elsevier
ISBN 13 : 0080521789
Total Pages : 731 pages
Book Rating : 4.0/5 (85 download)
Download or read book Yeast Gene Analysis written by and published by Elsevier. This book was released on 2011-09-21 with total page 731 pages. Available in PDF, EPUB and Kindle. Book excerpt: Focusing on Saccharomyces cerevisiae, the second edition of Yeast Gene Analysis represents a major reworking of the original edition, with many completely new chapters and major revisions to all previous chapters. Originally published shortly after completion of the yeast genome sequence, the new edition covers many of the major genome-wide strategies that have been developed since then such as microarray analysis of transcription, synthetic gene array studies, protein microarrays and chemical genetic approaches. It represents a valuable resource for any research laboratory using budding yeast as their experimental system in which to identify new yeast gene functions. The chapters are written in a readable style with useful background information, technical tips and specific experimental protocols included as appropriate, enabling both the novice and the experienced yeast researcher to adopt new procedures with confidence. New chapters on: Strain construction; genome-wide two-hybrid approaches; use of microarrays for transcript analysis; real-time analysis of chromosome behaviour and FRET; synthetic gene array technology and protein arrays; chemical genomics and yeast prions; RNA gene analysis and mitochondrial gene function analysis; phylogenetic footprinting; discovering human gene function and predicting yeast gene function
Author : Christopher W. J. Smith
Publisher : Oxford University Press on Demand
ISBN 13 : 9780199636501
Total Pages : 341 pages
Book Rating : 4.6/5 (365 download)
Download or read book RNA-protein Interactions written by Christopher W. J. Smith and published by Oxford University Press on Demand. This book was released on 1998 with total page 341 pages. Available in PDF, EPUB and Kindle. Book excerpt: RNA-protein interactions play a vital role in gene transcription and protein expression. Interactions such as the synthesis of mRNA by RNA polymerases, to the essential modification of RNA by the proteins of the spliceosome complex, and the highly catalytic action of the ribosome in protein synthesis, are established as being fundamental to the function of RNA. Recent research into, for example, the role of RNA as a catalyst, has elucidated many more interactions with proteins that are vital to cell function. RNA - Protein Interactions: A Practical Approach provides a clear and comprehensive guide to the experimental procedures used in studying RNA - protein interactions. The approaches covered range from those initially used to detect a novel RNA-protein interaction, various biochemical and genetic approaches to purifying and cloning RNA binding proteins, through to methods for an in depth analysis of the structural basis of the interaction. The volume includes a number of procedures that have not previously been covered in this type of manual. These include the production of site-specifically modified RNAs by enzymatic and chemical methods and in vivo screening for novel RNA - protein interactions in yeast and E. coli . This is the first volume to gather in one place this wide array of approaches for studying RNA - protein interactions. As is customary for the Practical Approach series, the writing is characterized by a clear explanatory style with many detailedprotocols. This informative book will be a valuable aid to laboratory workers in biochemistry and molecular biology - graduate students, postdoctoral and senior scientists - whose research encompasses this field.
Author : Paul N. MacDonald
Publisher : Springer Science & Business Media
ISBN 13 : 1592592104
Total Pages : 337 pages
Book Rating : 4.5/5 (925 download)
Download or read book Two-Hybrid Systems written by Paul N. MacDonald and published by Springer Science & Business Media. This book was released on 2008-02-03 with total page 337 pages. Available in PDF, EPUB and Kindle. Book excerpt: The yeast two-hybrid system is one of the most widely used and productive techniques available for investigating the macromolecular interactions that affect virtually all biological processes. In Two-Hybrid Systems: Methods and Protocols, Paul N. MacDonald has assembled a collection of these 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 problems 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. Comprehensive and highly practical, Two-Hybrid Systems: Methods and Protocols not only reveals how the great variety of plasmid vectors and approaches may be optimally deployed, but also quickly empowers novices to establish two-hybrid systems in their laboratories, and experienced researchers to expand their repertoire of techniques.
Author : Edward Joseph Licitra
Publisher :
ISBN 13 :
Total Pages : 436 pages
Book Rating : 4.:/5 (361 download)
Download or read book The Yeast Three-hybrid System written by Edward Joseph Licitra and published by . This book was released on 1996 with total page 436 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Author : Ren-Jang Lin
Publisher : Humana Press
ISBN 13 : 9781603278553
Total Pages : 0 pages
Book Rating : 4.2/5 (785 download)
Download or read book RNA-Protein Interaction Protocols written by Ren-Jang Lin and published by Humana Press. This book was released on 2008-11-01 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Due to the vital biological importance of RNA and proteins functioning together within a cell, a protocol volume describing experimental procedures to study their interactions should find a home in many laboratories. RNA-Protein Interaction Protocols, Second Edition updates, complements, and expands upon the popular first edition by providing a collection of cutting-edge techniques developed or refined in the past few years along with tried-and-true methods. The expert contributors explore the isolation and characterization of RNA-protein complexes, the analysis and measurement of RNA-protein interaction, and related novel techniques and strategies. Written in the highly successful Methods in Molecular BiologyTM series format, the chapters include brief introductions to the material, lists of necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and a Notes section which highlights tips on troubleshooting and avoiding known pitfalls. Comprehensive and up-to-date, RNA-Protein Interaction Protocols, Second Edition is an ideal guide for researchers continuing the study of this all-important biological partnership.
Author : Frank J. Schmidt
Publisher : Humana Press
ISBN 13 : 9781493918959
Total Pages : 0 pages
Book Rating : 4.9/5 (189 download)
Download or read book RNA-RNA Interactions written by Frank J. Schmidt and published by Humana Press. This book was released on 2014-10-29 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: In this volume expert researchers in the field detail many of the methods which are now commonly used to study RNA. These methods are presented as a guidebook to scientists who are experienced with RNA research and want to brush up on a new technique. 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 key tips on troubleshooting and avoiding known pitfalls. Thorough and intuitive, RNA-RNA Interactions: Methods and Protocols guides scientists investigating biological systems and studying RNA.
Author :
Publisher :
ISBN 13 :
Total Pages : 980 pages
Book Rating : 4.F/5 ( download)
Download or read book Dissertation Abstracts International written by and published by . This book was released on 2008 with total page 980 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Author : Timothy D. Veenstra
Publisher : John Wiley & Sons
ISBN 13 : 0470007737
Total Pages : 361 pages
Book Rating : 4.4/5 (7 download)
Download or read book Proteomics for Biological Discovery written by Timothy D. Veenstra and published by John Wiley & Sons. This book was released on 2006-06-12 with total page 361 pages. Available in PDF, EPUB and Kindle. Book excerpt: Written by recognized experts in the study of proteins, Proteomics for Biological Discovery begins by discussing the emergence of proteomics from genome sequencing projects and a summary of potential answers to be gained from proteome-level research. The tools of proteomics, from conventional to novel techniques, are then dealt with in terms of underlying concepts, limitations and future directions. An invaluable source of information, this title also provides a thorough overview of the current developments in post-translational modification studies, structural proteomics, biochemical proteomics, microfabrication, applied proteomics, and bioinformatics relevant to proteomics. Presents a comprehensive and coherent review of the major issues faced in terms of technology development, bioinformatics, strategic approaches, and applications Chapters offer a rigorous overview with summary of limitations, emerging approaches, questions, and realistic future industry and basic science applications Discusses higher level integrative aspects, including technical challenges and applications for drug discovery Accessible to the novice while providing experienced investigators essential information Proteomics for Biological Discovery is an essential resource for students, postdoctoral fellows, and researchers across all fields of biomedical research, including biochemistry, protein chemistry, molecular genetics, cell/developmental biology, and bioinformatics.
Author : Bruce Alberts
Publisher :
ISBN 13 : 9780815332183
Total Pages : 0 pages
Book Rating : 4.3/5 (321 download)
Download or read book Molecular Biology of The Cell written by Bruce Alberts and published by . This book was released on 2002 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt:
