Quantitative Proteomics
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Quantitative Proteomics
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Author : Claire E Eyers
language : en
Publisher: Royal Society of Chemistry
Release Date : 2014-02-10
Quantitative Proteomics written by Claire E Eyers and has been published by Royal Society of Chemistry this book supported file pdf, txt, epub, kindle and other format this book has been release on 2014-02-10 with Science categories.
As a component of post-genome science, the field of proteomics has assumed great prominence in recent years. Whereas quantitative analyses focussed initially on relative quantification, a greater emphasis is now placed on absolute quantification and consideration of proteome dynamics. Coverage of the topic of quantitative proteomics requires consideration both of the analytical fundamentals of quantitative mass spectrometry and the specific demands of the problem being addressed. Quantitative Proteomics aims to outline the state of the art in mass spectrometry-based quantitative proteomics, describing recent advances and current limitations in the instrumentation used, together with the various methods employed for generating high quality data. Details on both strategies describing how stable isotope labelling can be applied and methods for performing quantitative analysis of proteins in a label-free manner are given. The utility of these strategies to understanding cellular protein dynamics are then exemplified with chapters looking at spatial proteomics, dynamics of protein function as determined by quantifying changes in protein post-translational modification and protein turnover. Finally, a key application of these techniques to biomarker discovery and validation is presented, together with the rapidly developing area of quantitative analysis of protein-based foodstuffs. This exemplary book is essential reading for analytical and biological mass spectrometrists working in proteomics research, as well as those undertaking either fundamental or clinical-based investigations with an interest in understanding protein dynamics and/or biomarker assessment.
Quantitative Proteomics By Mass Spectrometry
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Author : Salvatore Sechi
language : en
Publisher: Springer Science & Business Media
Release Date : 2008-02-05
Quantitative Proteomics By Mass Spectrometry written by Salvatore Sechi 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 2008-02-05 with Science categories.
Quantitative Proteomics by Mass Spectrometry, from the Methods in Molecular BiologyTM series, is a compendium of cutting-edge protocols for quantitative proteomics, and presents the most significant methods used in the field today. The focus on mass spectrometry (MS) is integral, as MS has, and will continue to be, an essential tool in proteomics for studying complex biological systems and human diseases. This volume, written and compiled by leading quantitative proteomic experts, is an indispensable resource in the search for novel biomarkers. Quantitative Proteomics by Mass Spectrometry presents several innovative MS quantitative procedures, including a variety of methods for introducing isotopic labels and quantifying post-translational modifications. Some of these methods include growing an organism in isotope-enriched media, performing trypsin proteolysis in the presence of 18O-water, reacting protein samples with isotopically labeled reagents, quantifying relative amount of proteins without the use of any isotopic labels. Attention is also given to state-of-the-art techniques for the characterization of the phosphoproteome and tandem MS for detection of inborn errors of metabolism. Specifically, the procedure for determinations of enzymatic activity could be used for large-scale screening of newborns. The protocols in this volume expand both the breadth and depth of readily available methods for quantitative proteomic researchers using MS..
Computational And Statistical Methods For Protein Quantification By Mass Spectrometry
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Author : Ingvar Eidhammer
language : en
Publisher: John Wiley & Sons
Release Date : 2013-02-11
Computational And Statistical Methods For Protein Quantification By Mass Spectrometry written by Ingvar Eidhammer and has been published by John Wiley & Sons this book supported file pdf, txt, epub, kindle and other format this book has been release on 2013-02-11 with Mathematics categories.
The definitive introduction to data analysis in quantitative proteomics This book provides all the necessary knowledge about mass spectrometry based proteomics methods and computational and statistical approaches to pursue the planning, design and analysis of quantitative proteomics experiments. The author’s carefully constructed approach allows readers to easily make the transition into the field of quantitative proteomics. Through detailed descriptions of wet-lab methods, computational approaches and statistical tools, this book covers the full scope of a quantitative experiment, allowing readers to acquire new knowledge as well as acting as a useful reference work for more advanced readers. Computational and Statistical Methods for Protein Quantification by Mass Spectrometry: Introduces the use of mass spectrometry in protein quantification and how the bioinformatics challenges in this field can be solved using statistical methods and various software programs. Is illustrated by a large number of figures and examples as well as numerous exercises. Provides both clear and rigorous descriptions of methods and approaches. Is thoroughly indexed and cross-referenced, combining the strengths of a text book with the utility of a reference work. Features detailed discussions of both wet-lab approaches and statistical and computational methods. With clear and thorough descriptions of the various methods and approaches, this book is accessible to biologists, informaticians, and statisticians alike and is aimed at readers across the academic spectrum, from advanced undergraduate students to post doctorates entering the field.
Modern Proteomics Sample Preparation Analysis And Practical Applications
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Author : Hamid Mirzaei
language : en
Publisher: Springer
Release Date : 2016-12-14
Modern Proteomics Sample Preparation Analysis And Practical Applications written by Hamid Mirzaei and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2016-12-14 with Science categories.
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.
Processing Metabolomics And Proteomics Data With Open Software
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Author : Robert Winkler
language : en
Publisher: Royal Society of Chemistry
Release Date : 2020-03-16
Processing Metabolomics And Proteomics Data With Open Software written by Robert Winkler and has been published by Royal Society of Chemistry this book supported file pdf, txt, epub, kindle and other format this book has been release on 2020-03-16 with Science categories.
Metabolomics and proteomics allow deep insights into the chemistry and physiology of biological systems. This book expounds open-source programs, platforms and programming tools for analysing metabolomics and proteomics mass spectrometry data. In contrast to commercial software, open-source software is created by the academic community, which facilitates the direct interaction between users and developers and accelerates the implementation of new concepts and ideas. The first section of the book covers the basics of mass spectrometry, experimental strategies, data operations, the open-source philosophy, metabolomics, proteomics and statistics/ data mining. In the second section, active programmers and users describe available software packages. Included tutorials, datasets and code examples can be used for training and for building custom workflows. Finally, every reader is invited to participate in the open science movement.
Mass Spectrometry Based Chemical Proteomics
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Author : W. Andy Tao
language : en
Publisher: John Wiley & Sons
Release Date : 2019-07-10
Mass Spectrometry Based Chemical Proteomics written by W. Andy Tao and has been published by John Wiley & Sons this book supported file pdf, txt, epub, kindle and other format this book has been release on 2019-07-10 with Science categories.
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.
Proteomics For Biological Discovery
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Author : Timothy D. Veenstra
language : en
Publisher: John Wiley & Sons
Release Date : 2019-05-07
Proteomics For Biological Discovery written by Timothy D. Veenstra and has been published by John Wiley & Sons this book supported file pdf, txt, epub, kindle and other format this book has been release on 2019-05-07 with Science categories.
An update to the popular guide to proteomics technology applications in biomedical research Building on the strength of the original edition, this book presents the state of the art in the field of proteomics and offers students and scientists new tools and techniques to advance their own research. Written by leading experts in the field, it provides readers with an understanding of new and emerging directions for proteomics research and applications. Proteomics for Biological Discovery begins by discussing the emergence of proteomics technologies and summarizing the potential insights to be gained from proteome-level research. The tools of proteomics, from conventional to novel techniques, are thoroughly covered, from underlying concepts to limitations and future directions. Later chapters provide an overview of the current developments in post-translational modification studies, structural proteomics, biochemical proteomics, applied proteomics, and bioinformatics relevant to proteomics. Chapters cover: Quantitative Proteomics for Differential Protein Expression Profiling; Protein Microarrays; Protein Biomarker Discovery; Biomarker Discovery using Mass Spectrometry Imaging; Protein-Protein Interactions; Mass Spectrometry Of Intact Protein Complexes; Crosslinking Applications in Structural Proteomics; Functional Proteomics; High Resolution Interrogation of Biological Systems via Mass Cytometry; Characterization of Drug-Protein Interactions by Chemoproteomics; Phosphorylation; Large-Scale Phosphoproteomics; and Probing Glycoforms of Individual Proteins Using Antibody-Lectin Sandwich Arrays. Presents a comprehensive and coherent review of the major issues in proteomic 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 Features new coverage of mass spectrometry for high throughput proteomic measurements, and novel quantitation strategies such as spectral counting and stable isotope labeling Discusses higher level integrative aspects, including technical challenges and applications for drug discovery Offers new chapters on biomarker discovery, global phosphorylation analysis, proteomic profiling using antibodies, and single cell mass spectrometry Proteomics for Biological Discovery is an excellent advanced resource for graduate students, postdoctoral fellows, and scientists across all the major fields of biomedical science.
Bioinformatics Of Human Proteomics
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Author : Xiangdong Wang
language : en
Publisher: Springer Science & Business Media
Release Date : 2013-01-26
Bioinformatics Of Human Proteomics written by Xiangdong Wang 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 2013-01-26 with Science categories.
“Bioinformatics of Human Proteomics” discusses the development of methods, techniques and applications in the field of protein bioinformatics, an important direction in bioinformatics. It collects contributions from expert researchers in order to provide a practical guide to this complex field of study. The book covers the protein interaction network, drug discovery and development, the relationship between translational medicine and bioinformatics, and advances in proteomic methods, while also demonstrating important bioinformatics tools and methods available today for protein analysis, interpretation and predication. It is intended for experts or senior researchers in the fields of clinical research-related biostatistics, bioinformatics, computational biology, medicine, statistics, system biology, molecular diagnostics, biomarkers, or drug discovery and development. Dr.Xiangdong Wang works as a distinguished professor of Respiratory Medicine at Fudan University, Shanghai, China. He serves as Director of Biomedical Research Center, Fudan University Zhongshan Hospital and adjunct professor of Clinical Bioinformatics at Lund University, Sweden. His main research is focused on the role of clinical bioinformatics in the development of disease-specific biomarkers and dynamic network biomarkers, the molecular mechanism of organ dysfunction and potential therapies.
A Handbook Of Derivatives For Mass Spectrometry
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Author : Vladimir Zaikin
language : en
Publisher: IM Publications
Release Date : 2009
A Handbook Of Derivatives For Mass Spectrometry written by Vladimir Zaikin and has been published by IM Publications this book supported file pdf, txt, epub, kindle and other format this book has been release on 2009 with Derivatization categories.
Chemical derivatisation of functional groups has proved popular since the beginning of organic mass spectrometry as a means to enhance the stability and volatility of the analytes as well as facilitating structure elucidation. This book provides comprehensive information on the wide range of derivatisation methods. Each chapter looks at a particular area of derivatisation and includes extensive references to the literature for further research where necessary. There are nearly 1800 references, which, as well as full bibliographic information, include chapter/paper titles where appropriate and Digital Object Identifiers (DOIs) to allow easy retrieval of the online version of the referenced publication. The emergence of atmospheric pressure ionisation and other soft ionisation techniques has not diminished the interest in such chemical techniques, as witnessed by the many chemical tags used in quantitative proteomics (Chapter 9). The last two chapters, a substantial part of the book, deal with derivatisation for use with soft ionisation of both small and large molecules. Chapters Silylation Acylation Alkylation (Arylation) Cyclic derivatives Monofunctional compounds Polyfunctional compounds On-line derivatisation/degradation Soft ionisation—small molecules Soft ionisation—large molecules
Proteomics In Nephrology
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Author : V. Thongboonkerd
language : en
Publisher: Karger Medical and Scientific Publishers
Release Date : 2004-07
Proteomics In Nephrology written by V. Thongboonkerd and has been published by Karger Medical and Scientific Publishers this book supported file pdf, txt, epub, kindle and other format this book has been release on 2004-07 with Medical categories.
The novel discipline of proteomics has experienced a rapid growth in the recent past and has a great potential for the future. Involving several fields, it offers various advantages: The study of proteins on a genomic scale allows to examine a large number of them simultaneously. Moreover, proteomic analysis provides information about post-translational modifications and functions of gene products or proteins that cannot be obtained by genomic analysis. The knowledge thus gained is also important for a better understanding of renal physiology and pathophysiology, to identify disease biomarkers, and to develop new target therapies. This book is the first one that applies the science of proteomics to nephrology: It sets out to give an overview of the discipline, providing detailed background information and outlining scope, advantages, and limitations of proteomics. The second section reviews principles of commonly used proteomic techniques, including sample preparation, two-dimensional gel electrophoresis, various types of mass spectrometry, expression proteomics, quantitative proteomics, practical bioinformatics, and clinical proteomics. In the last section, examples and perspectives are provided of how proteomics can be applied to various fields in nephrology, including nephrotoxicity, sodium transport, diabetic nephropathy, renal Fanconi syndrome, IgA nephropathy, physiology of podocytes and mesangial cells, hypertension, urological malignancies, and dialysis. The publication ends with a discussion of biomarker discovery in glomerular diseases and drug discovery. Written by acclaimed experts in both proteomics and nephrology, this truly remarkable book is essential reading for students, residents, fellows, scientists, and nephrologists who are interested in or devoted to research, as well as for general health professionals and clinicians.