Proteome Analysis

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2-D Proteome Analysis Protocols

Author : Andrew J. Link
Publisher : Springer Science & Business Media
Page : 585 pages
File Size : 40,5 Mb
Release : 2008-02-02
Category : Science
ISBN : 9781592595846

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2-D Proteome Analysis Protocols by Andrew J. Link Pdf

With the completion of sequencing projects and the advancement of a- lytical tools for protein identification, proteomics—the study of the expressed part of the genome—has become a major region of the burgeoning field of functional genomics. High-resolution 2-D gels can reveal virtually all p- teins present in a cell or tissue at any given time, including posttranslationally modified proteins. Changes in the expression and structure of most cellular proteins caused by differentiation or external stimuli can be displayed and eventually identified using 2-D protein gels. 2-D Proteome Analysis Protocols covers all aspects of the use of 2-D protein electrophoresis for the analysis of biological problems. The contri- tors include many of the leaders in the fields of biochemistry and analytical chemistry who were instrumental in the development of high-resolution 2-D gels, immobilized pH gradients, computer analysis, and mass spectromet- based protein identification methodologies. This book is intended as a benchtop manual and guide both for novices to 2-D gels and for those aficionados who wish to try the newer techniques. Any group using protein biochemistry—especially in the fields of molecular biology, biochemistry, microbiology, and cell biology—should find this book eminently useful. 2-D Proteome Analysis Protocols takes the researcher through the c- plete process of working with 2-D protein gels from making the protein - tract to finally identifying the proteins of interest. It includes protocols for generating 2-D protein extracts from most of the standard model organisms, including bacteria, yeast, nematode, Drosophila, plants, mouse, and human.

Proteomics Data Analysis

Author : Daniela Cecconi
Publisher : Unknown
Page : 326 pages
File Size : 41,9 Mb
Release : 2021
Category : Proteomics
ISBN : 1071616412

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Proteomics Data Analysis by Daniela Cecconi Pdf

This thorough book collects methods and strategies to analyze proteomics data. It is intended to describe how data obtained by gel-based or gel-free proteomics approaches can be inspected, organized, and interpreted to extrapolate biological information. Organized into four sections, the volume explores strategies to analyze proteomics data obtained by gel-based approaches, different data analysis approaches for gel-free proteomics experiments, bioinformatic tools for the interpretation of proteomics data to obtain biological significant information, as well as methods to integrate proteomics data with other omics datasets including genomics, transcriptomics, metabolomics, and other types of data. Written for the highly successful Methods in Molecular Biology series, chapters include the kind of detailed implementation advice that will ensure high quality results in the lab. Authoritative and practical, Proteomics Data Analysis serves as an ideal guide to introduce researchers, both experienced and novice, to new tools and approaches for data analysis to encourage the further study of proteomics.

Quantitative Proteome Analysis

Author : Kazuhiro Imai,Sam Li Fong Yau
Publisher : CRC Press
Page : 314 pages
File Size : 50,5 Mb
Release : 2013-08-05
Category : Science
ISBN : 9789814316514

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Quantitative Proteome Analysis by Kazuhiro Imai,Sam Li Fong Yau Pdf

This book focuses on the advantages and disadvantages of each of the commonly used quantitative proteomic methods in terms of accuracy, sensitivity, and reproducibility. It also concentrates on the effective applications of these methods that resulted in many discoveries of the role of the proteins expressed in living cells and biological fluids. The first part of the book focuses on the description of advantages and disadvantages of each of the commonly used quantitative proteomic methods in terms of accuracy, sensitivity, and, especially, reproducibility. The second part of the book focuses on providing concise descriptions of the effective applications of these methods to demonstrate how they have resulted in many important discoveries of the roles of the proteins expressed in living cells.

Proteomics in Practice

Author : Reiner Westermeier,Tom Naven,Hans-Rudolf Höpker
Publisher : John Wiley & Sons
Page : 502 pages
File Size : 45,5 Mb
Release : 2008-09-08
Category : Science
ISBN : 9783527622306

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Proteomics in Practice by Reiner Westermeier,Tom Naven,Hans-Rudolf Höpker Pdf

Still the only concise practical guide to laboratory experiments in proteomics, this new edition now also covers DIGE technology and liquid-chromatography, while the troubleshooting section has been considerably extended. Adopting a practical approach, the authors present the relevant techniques and explain the route to successful experimental design and optimal method selection. They cover such electrophoretic techniques as isoelectric focusing, SDS page, 2-D page, and DIGE, as well as liquid-chromatography techniques, such as ion exchange, affinity chromatography and reversed-phase HPLC. Mass-spectrometric techniques include MALDI, ESI, and FT ICR. Generously illustrated, partly in color, the book also features updates of protocols as well as animations illustrating crucial methodological steps on a companion website.

Neuroproteomics

Author : Oscar Alzate
Publisher : CRC Press
Page : 356 pages
File Size : 47,6 Mb
Release : 2009-10-26
Category : Medical
ISBN : 9781420076264

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Neuroproteomics by Oscar Alzate Pdf

In this, the post-genomic age, our knowledge of biological systems continues to expand and progress. As the research becomes more focused, so too does the data. Genomic research progresses to proteomics and brings us to a deeper understanding of the behavior and function of protein clusters. And now proteomics gives way to neuroproteomics as we beg

Proteome Analysis

Author : David W Speicher
Publisher : Elsevier
Page : 394 pages
File Size : 45,7 Mb
Release : 2004-05-18
Category : Science
ISBN : 9780080515304

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Proteome Analysis by David W Speicher Pdf

This book explores the current status of proteomics, an exciting new discipline, which is less than 10 years old. This new field has rapidly grown into a major commercial and research enterprise with great prospects for dramatically advancing our knowledge of basic biological and disease processes. The contributors to this book are an international panel of proteomics experts, who review and discuss the current status of specific technologies and approaches. Proteomics represents an exciting new way to pursue biological and biomedical science at an unprecedented pace. Proteomics takes a broad, comprehensive, systematic approach to understanding biology that is generally unbiased and not dependent upon existing knowledge. The major components of proteomics from basic discovery using a range of alternative analytical methods to discovery validation and use for clinical applications are discussed. State-of-the-art protein profiling methods include high resolution two-dimensional gels, two-dimensional differential in-gel electrophoresis, LC-MS and LC-MS/MS using accurate mass tags, and protein identifications of proteins from gels using mass spectrometry methods are discussed in depth. Other chapters describe comprehensive characterization of proteomes using electrophoretic prefractionation and analyses of sub-proteomes based on specific posttranslational modifications including the phospho-proteome, the glyco-proteome, and nitrated proteins. These conventional proteome analysis chapters are complemented by discussion of emerging technologies and approaches such as affinity based biosensor proteomics as well as the use of protein microarrays, microfluidics and nanotechnology. Strategies for improving throughput by automation are also discussed. Additional chapters address the application of current proteome techniques to clinical problems and the availability of protein expression library resources for proteome studies. · Authored by international experts in the field · Covers a wide range of topics including 2-D gels, global proteomics using accurate mass tags, global proteomics using electrophoretic prefractionation, microfluidics, and nanotechnology · Includes state-of-the-art protein profiling methods, and emerging technologies

Modern Proteomics – Sample Preparation, Analysis and Practical Applications

Author : Hamid Mirzaei,Martin Carrasco
Publisher : Springer
Page : 533 pages
File Size : 40,7 Mb
Release : 2016-12-14
Category : Science
ISBN : 9783319414485

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Modern Proteomics – Sample Preparation, Analysis and Practical Applications by Hamid Mirzaei,Martin Carrasco Pdf

This volume serves as a proteomics reference manual, describing experimental design and execution. The book also shows a large number of examples as to what can be achieved using proteomics techniques. As a relatively young area of scientific research, the breadth and depth of the current state of the art in proteomics might not be obvious to all potential users. There are various books and review articles that cover certain aspects of proteomics but they often lack technical details. Subject specific literature also lacks the broad overviews that are needed to design an experiment in which all steps are compatible and coherent. The objective of this book was to create a proteomics manual to provide scientists who are not experts in the field with an overview of: 1. The types of samples can be analyzed by mass spectrometry for proteomics analysis. 2. Ways to convert biological or ecological samples to analytes ready for mass spectral analysis. 3. Ways to reduce the complexity of the proteome to achieve better coverage of the constituent proteins. 4. How various mass spectrometers work and different ways they can be used for proteomics analysis 5. The various platforms that are available for proteomics data analysis 6. The various applications of proteomics technologies in biological and medical sciences This book should appeal to anyone with an interest in proteomics technologies, proteomics related bioinformatics and proteomics data generation and interpretation. With the broad setup and chapters written by experts in the field, there is information that is valuable for students as well as for researchers who are looking for a hands on introduction into the strengths, weaknesses and opportunities of proteomics.

Genome Transcriptome and Proteome Analysis

Author : Alain Bernot
Publisher : John Wiley and Sons
Page : 249 pages
File Size : 43,5 Mb
Release : 2007-12-10
Category : Science
ISBN : 9780470299562

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Genome Transcriptome and Proteome Analysis by Alain Bernot Pdf

Genome Transcriptome and Proteome Analysis is a concise introduction to the subject, successfully bringing together these three key areas of research. Starting with a revision of molecular genetics the book offers clear explanations of the tools and techniques widely used in genome, transcriptome and proteome analysis. Subsequent chapters offer a broad overview of linkage maps, physical maps and genome sequencing, with a final discussion on the identification of genes responsible for disease. An invaluable introduction to the basic concepts of the subject, this text offers the student an excellent overview of current research methods and applications and is a good starting point for those new to the area. A clear, concise introduction to the subject of modern genomic analysis A technology-oriented approach including the latest developments in the field Invaluable to those students taking courses in Bioinformatics, Human Genetics, Biochemistry and Molecular Biology

Proteome Analysis

Author : David W Speicher
Publisher : Elsevier
Page : 398 pages
File Size : 53,5 Mb
Release : 2004-03-26
Category : Science
ISBN : 0444510249

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Proteome Analysis by David W Speicher Pdf

State-of-the-art protein profiling methods include high resolution two-dimensional gels, two-dimensional differential in-gel electrophoresis, LC-MS and LC-MS/MS using accurate mass tags, and protein identifications of proteins from gels using mass spectrometry methods are discussed in depth. Other chapters describe comprehensive characterization of proteomes using electrophoretic prefractionation and analyses of sub-proteomes based on specific posttranslational modifications including the phospho-proteome, the glyco-proteome, and nitrated proteins. These conventional proteome analysis chapters are complemented by discussion of emerging technologies and approaches such as affinity based biosensor proteomics as well as the use of protein microarrays, microfluidics and nanotechnology. Strategies for improving throughput by automation are also discussed.-

Mass Spectrometry-Based Chemical Proteomics

Author : W. Andy Tao,Ying Zhang
Publisher : John Wiley & Sons
Page : 448 pages
File Size : 40,9 Mb
Release : 2019-07-10
Category : Science
ISBN : 9781118970218

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Mass Spectrometry-Based Chemical Proteomics by W. Andy Tao,Ying Zhang Pdf

PROVIDES STRATEGIES AND CONCEPTS FOR UNDERSTANDING CHEMICAL PROTEOMICS, AND ANALYZING PROTEIN FUNCTIONS, MODIFICATIONS, AND INTERACTIONS—EMPHASIZING MASS SPECTROMETRY THROUGHOUT Covering mass spectrometry for chemical proteomics, this book helps readers understand analytical strategies behind protein functions, their modifications and interactions, and applications in drug discovery. It provides a basic overview and presents concepts in chemical proteomics through three angles: Strategies, Technical Advances, and Applications. Chapters cover those many technical advances and applications in drug discovery, from target identification to validation and potential treatments. The first section of Mass Spectrometry-Based Chemical Proteomics starts by reviewing basic methods and recent advances in mass spectrometry for proteomics, including shotgun proteomics, quantitative proteomics, and data analyses. The next section covers a variety of techniques and strategies coupling chemical probes to MS-based proteomics to provide functional insights into the proteome. In the last section, it focuses on using chemical strategies to study protein post-translational modifications and high-order structures. Summarizes chemical proteomics, up-to-date concepts, analysis, and target validation Covers fundamentals and strategies, including the profiling of enzyme activities and protein-drug interactions Explains technical advances in the field and describes on shotgun proteomics, quantitative proteomics, and corresponding methods of software and database usage for proteomics Includes a wide variety of applications in drug discovery, from kinase inhibitors and intracellular drug targets to the chemoproteomics analysis of natural products Addresses an important tool in small molecule drug discovery, appealing to both academia and the pharmaceutical industry Mass Spectrometry-Based Chemical Proteomics is an excellent source of information for readers in both academia and industry in a variety of fields, including pharmaceutical sciences, drug discovery, molecular biology, bioinformatics, and analytical sciences.

Fundamentals of Contemporary Mass Spectrometry

Author : Chhabil Dass
Publisher : John Wiley & Sons
Page : 512 pages
File Size : 45,8 Mb
Release : 2007-05-11
Category : Science
ISBN : 9780470118481

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Fundamentals of Contemporary Mass Spectrometry by Chhabil Dass Pdf

Modern mass spectrometry - the instrumentation and applications in diverse fields Mass spectrometry has played a pivotal role in a variety of scientific disciplines. Today it is an integral part of proteomics and drug discovery process. Fundamentals of Contemporary Mass Spectrometry gives readers a concise and authoritative overview of modern mass spectrometry instrumentation, techniques, and applications, including the latest developments. After an introduction to the history of mass spectrometry and the basic underlying concepts, it covers: Instrumentation, including modes of ionization, condensed phase ionization techniques, mass analysis and ion detection, tandem mass spectrometry, and hyphenated separation techniques Organic and inorganic mass spectrometry Biological mass spectrometry, including the analysis of proteins and peptides, oligosaccharides, lipids, oligonucleotides, and other biological materials Applications to quantitative analysis Based on proven teaching principles, each chapter is complete with a concise overview, highlighted key points, practice exercises, and references to additional resources. Hints and solutions to the exercises are provided in an appendix. To facilitate learning and improve problem-solving skills, several worked-out examples are included. This is a great textbook for graduate students in chemistry, and a robust, practical resource for researchers and scientists, professors, laboratory managers, technicians, and others. It gives scientists in diverse disciplines a practical foundation in modern mass spectrometry.

Quantitative Proteome Analysis

Author : Kazuhiro Imai,Sam Li Fong Yau
Publisher : CRC Press
Page : 304 pages
File Size : 55,5 Mb
Release : 2013-08-05
Category : Science
ISBN : 9789814316989

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Quantitative Proteome Analysis by Kazuhiro Imai,Sam Li Fong Yau Pdf

This book focuses on the advantages and disadvantages of each of the commonly used quantitative proteomic methods in terms of accuracy, sensitivity, and reproducibility. It also concentrates on the effective applications of these methods that resulted in many discoveries of the role of the proteins expressed in living cells and biological fluids. T

Methods in Proteome and Protein Analysis

Author : Roza Maria Kamp,Juan J. Calvete,Theodora Choli-Papadopoulou
Publisher : Springer Science & Business Media
Page : 429 pages
File Size : 40,9 Mb
Release : 2013-03-09
Category : Science
ISBN : 9783662087220

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Methods in Proteome and Protein Analysis by Roza Maria Kamp,Juan J. Calvete,Theodora Choli-Papadopoulou Pdf

Following the succesful publication of "Proteome and Protein Analysis" in 2000, which was based on a former MPSA (Methods in Protein Structure Analysis) conference, Methods in Proteome and Protein Analysis presents the most interesting papers from the 14th MPSA meeting. Major topics include: protein and peptide sample preparation and separation; new reagent for protein sequence analysis; mass spectrometry in protein research; analysis of posttranslational modification; protein-protein interaction using MALDI-MS; manipulation of genome or functional compositon trap; structure-function correlation study using optical biosensors of microcolorimetrical techniques; structural proteomics as NMR or fluorescence polarization study; the classification and prediction of structure or functional sites; in silico analysis of proteins and proteomes; increasing throughput and data quality for proteomics.

Proteome Characterization and Proteomics

Author : Timothy D. Veenstra,Richard D. Smith
Publisher : Academic Press
Page : 445 pages
File Size : 52,7 Mb
Release : 2003-10-01
Category : Science
ISBN : 9780080569154

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Proteome Characterization and Proteomics by Timothy D. Veenstra,Richard D. Smith Pdf

The content of this volume is designed to reach a wide audience, including those involved with relevant technologies such as electrophoresis and mass spectrometry, to those interested in how proteomics can benefit research. A wide range of techniques are discussed, each specifically designed to address different needs in proteomic analysis. The concluding chapter discusses the important issue related to handling large amounts of data accumulated in proteomic studies. Discusses proteomics in the postgenomic age Includes various strategies for quantitative proteomics Covers the role of MS in structural functional proteomics and proteomics in drug discovery and bioinformatics

Proteome Research: New Frontiers in Functional Genomics

Author : Marc R. Wilkins,Keith L. Williams,Ron D. Appel,Denis F. Hochstrasser
Publisher : Springer Science & Business Media
Page : 256 pages
File Size : 42,6 Mb
Release : 2013-03-14
Category : Science
ISBN : 9783662034934

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Proteome Research: New Frontiers in Functional Genomics by Marc R. Wilkins,Keith L. Williams,Ron D. Appel,Denis F. Hochstrasser Pdf

Recent advances in two-dimensional electrophoresis, protein microanalysis and bioinformatics have made the large-scale, systematic analysis of proteins and their post-translational modifications from any tissue or organism possible. This approach has acquired the name "Proteome Research", and can be considered as the core of functional genomics. The results of proteome analysis show which genes are expressed, how the protein products are modified, and how they interact, making proteome research of fundamental importance for the biologist, clinician, and pharmaceutical industry.