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Introduction to Protein Mass Spectrometry

Introduction to Protein Mass Spectrometry
  • Author : Pradip Kumar Ghosh
  • Publisher :Unknown
  • Release Date :2015-12-10
  • Total pages :312
  • ISBN : 9780128021125
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Summary : Introduction to Protein Mass Spectrometry provides a comprehensive overview of this increasingly important, yet complex, analytical technique. Unlike many other methods which automatically yield an absolutely unique protein name as output, protein mass spectrometry generally requires a deduction of protein identity from determination of peptide fragmentation products. This book enables readers to both understand, and appreciate, how determinations about protein identity from mass spectrometric data are made. Coverage begins with the technical basics, including preparations, instruments, and spectrometric analysis of peptides and proteins, before exploring applied use in biological applications, bioinformatics, database, and software resources. Citing the most recent and relevant work in the field of biological mass spectrometry, the book is written for researchers and scientists new to the field, but is also an ideal resource for those hoping to hone their analytical abilities. Offers introductory information for scientists and researchers new to the field, as well as advanced insight into the critical assessment of computer-analyzed mass spectrometric results and their current limitations Provides examples of commonly-used MS instruments from Bruker, Applied Biosystems, JEOL, Thermo Scientific/Thermo Fisher Scientific, IU, and Waters Includes biological applications and exploration of analytical tools and databases for bioinformatics

Characterization of Protein Therapeutics using Mass Spectrometry

Characterization of Protein Therapeutics using Mass Spectrometry
  • Author : Guodong Chen
  • Publisher :Unknown
  • Release Date :2014-07-08
  • Total pages :404
  • ISBN : 9781441978622
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Summary : This book highlights current approaches and future trends in the use of mass spectrometry to characterize protein therapies. As one of the most frequently utilized analytical techniques in pharmaceutical research and development, mass spectrometry has been widely used in the characterization of protein therapeutics due to its analytical sensitivity, selectivity, and specificity. This book begins with an overview of mass spectrometry techniques as related to the analysis of protein therapeutics, structural identification strategies, quantitative approaches, followed by studies involving characterization of process related protein drug impurities/degradants, metabolites, higher order structures of protein therapeutics. Both general practitioners in pharmaceutical research and specialists in analytical sciences will benefit from this book that details step-by-step approaches and new strategies to solve challenging problems related to protein therapeutics research and development.

Protein Sequencing and Identification Using Tandem Mass Spectrometry

Protein Sequencing and Identification Using Tandem Mass Spectrometry
  • Author : Michael Kinter,Nicholas E. Sherman
  • Publisher :Unknown
  • Release Date :2005-04-12
  • Total pages :320
  • ISBN : 9780471231882
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Summary : How to design, execute, and interpret experiments for proteinsequencing using mass spectrometry The rapid expansion of searchable protein and DNA databases inrecent years has triggered an explosive growth in the applicationof mass spectrometry to protein sequencing. This timely andauthoritative book provides professionals and scientists inbiotechnology research with complete coverage of procedures foranalyzing protein sequences by mass spectrometry, includingstep-by-step guidelines for sample preparation, analysis, and datainterpretation. Michael Kinter and Nicholas Sherman present their ownhigh-quality, laboratory-tested protocols for the analysis of awide variety of samples, demonstrating how to carry out specificexperiments and obtain fast, reliable results with a 99% successrate. Readers will get sufficient experimental detail to apply intheir own laboratories, learn about the proper selection andoperation of instruments, and gain essential insight into thefundamental principles of mass spectrometry and protein sequencing.Coverage includes: Peptide fragmentation and interpretation of product ionspectra Basic polyacrylamide gel electrophoresis Preparation of protein digests for sequencing experiments Mass spectrometric analysis using capillary liquidchromatography Techniques for protein identification by database searches Characterization of modified peptides using tandem massspectrometry And much more

Plant Systems Biology

Plant Systems Biology
  • Author : Sacha Baginsky,Alisdair R. Fernie
  • Publisher :Unknown
  • Release Date :2007-06-25
  • Total pages :358
  • ISBN : 9783764374396
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Summary : This volume aims to provide a timely view of the state-of-the-art in systems biology. The editors take the opportunity to define systems biology as they and the contributing authors see it, and this will lay the groundwork for future studies. The volume is well-suited to both students and researchers interested in the methods of systems biology. Although the focus is on plant systems biology, the proposed material could be suitably applied to any organism.

Computational and Statistical Methods for Protein Quantification by Mass Spectrometry

Computational and Statistical Methods for Protein Quantification by Mass Spectrometry
  • Author : Ingvar Eidhammer,Harald Barsnes,Geir Egil Eide,Lennart Martens
  • Publisher :Unknown
  • Release Date :2012-12-10
  • Total pages :360
  • ISBN : 9781118493779
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Summary : The definitive introduction to data analysis in quantitativeproteomics This book provides all the necessary knowledge about massspectrometry based proteomics methods and computational andstatistical approaches to pursue the planning, design and analysisof quantitative proteomics experiments. The author’scarefully constructed approach allows readers to easily make thetransition into the field of quantitative proteomics. Throughdetailed descriptions of wet-lab methods, computational approachesand statistical tools, this book covers the full scope of aquantitative experiment, allowing readers to acquire new knowledgeas well as acting as a useful reference work for more advancedreaders. Computational and Statistical Methods for ProteinQuantification by Mass Spectrometry: Introduces the use of mass spectrometry in proteinquantification and how the bioinformatics challenges in this fieldcan be solved using statistical methods and various softwareprograms. Is illustrated by a large number of figures and examples aswell as numerous exercises. Provides both clear and rigorous descriptions of methods andapproaches. Is thoroughly indexed and cross-referenced, combining thestrengths of a text book with the utility of a reference work. Features detailed discussions of both wet-lab approaches andstatistical and computational methods. With clear and thorough descriptions of the various methods andapproaches, this book is accessible to biologists, informaticians,and statisticians alike and is aimed at readers across the academicspectrum, from advanced undergraduate students to post doctoratesentering the field.

Mass Spectrometry Data Analysis in Proteomics

Mass Spectrometry Data Analysis in Proteomics
  • Author : Rune Matthiesen
  • Publisher :Unknown
  • Release Date :2013-05-11
  • Total pages :405
  • ISBN : 1627033939
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Summary : Since the publishing of the first edition, the methodologies and instrumentation involved in the field of mass spectrometry-based proteomics has improved considerably. Fully revised and expanded, Mass Spectrometry Data Analysis in Proteomics, Second Edition presents expert chapters on specific MS-based methods or data analysis strategies in proteomics. The volume covers data analysis topics relevant for quantitative proteomics, post translational modification, HX-MS, glycomics, and data exchange standards, among other topics. Written in the highly successful Methods in Molecular Biology series format, chapters include brief introductions to their respective subjects, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Updated and authoritative, Mass Spectrometry Data Analysis in Proteomics, Second Edition serves as a detailed guide for all researchers seeking to further our knowledge in the field of proteomics.

Introduction to Peptides and Proteins

Introduction to Peptides and Proteins
  • Author : Ulo Langel,Benjamin F. Cravatt,Astrid Graslund,N.G.H. von Heijne,Matjaz Zorko,Tiit Land,Sherry Niessen
  • Publisher :Unknown
  • Release Date :2009-11-18
  • Total pages :420
  • ISBN : 9781439882047
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Summary : Human cells produce at least 30,000 different proteins. Each has a specific function characterized by a unique sequence and native conformation that allows it to perform that function. While research in this post-genomic era has created a deluge of invaluable information, the field has lacked for an authoritative introductory text needed to inform researchers and students in all of those fields now concerned with protein research. Introduction to Peptides and Proteins brings together some of the most respected researchers in protein science to present a remarkably coherent introduction to modern peptide and protein chemistry. The first sections of the book delve into – Basic peptide and protein science from assembly through degradation Traditional and emerging research methods including those used in bioinformatics and proteomics New computational approaches and algorithms used to find patterns in the vast data collected by sequencing projects After providing a foundation in tools and methods, the authors closely examine six protein families, including representative classes such as enzymes, cell-surface receptors, antibodies, fibrous proteins, and bioactive peptide classes. They concentrate on biochemical mechanisms and where possible indicate therapeutic or biotechnical possibilities. Then focusing on clinical aspects, the authors investigate misfolding as found in prion diseases, miscleavage as found in Alzheimer’s, and mis-sequencing as found with some cancers. Drawing from some of their own research, the authors summarize recent achievements and emerging applications. They discuss the use of proteins and peptides as drugs and the solid-phase synthesis required for drug production. They also look at the use of peptides as functional biomolecules and research tools. No longer just the domain of biologists, many key advances in protein research started in physics labs and have involved contributions from a host of fields including statistics, drug development, genetics, and chemical spectroscopy. Introduction to Peptides and Proteins provides researchers across these fields with the thorough foundation needed to explore all the potential that protein research offers.

Neuroproteomics

Neuroproteomics
  • Author : Oscar Alzate
  • Publisher :Unknown
  • Release Date :2009-10-26
  • Total pages :354
  • ISBN : 1420076264
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Summary : 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 begin to unravel the complex mysteries of neurological diseases that less than a generation ago seemed opaque to our inquiries, if not altogether intractable. Edited by Dr. Oscar Alzate, Neuroproteomics is the newest volume in the CRC Press Frontiers of Neuroscience Series. With an extensive background in mathematics and physics, Dr. Alzate exemplifies the newest generation of biological systems researchers. He organizes research and data contributed from all across the world to present an overview of neuroproteomics that is practical and progressive. Bolstered by each new discovery, researchers employing multiple methods of inquiry gain a deeper understanding of the key biological problems related to brain function, brain structure, and the complexity of the nervous system. This in turn is leading to new understanding about diseases of neurological deficit such as Parkinson’s and Alzheimer’s. Approaches discussed in the book include mass spectrometry, electrophoresis, chromatography, surface plasmon resonance, protein arrays, immunoblotting, computational proteomics, and molecular imaging. Writing about their own work, leading researchers detail the principles, approaches, and difficulties of the various techniques, demonstrating the questions that neuroproteomics can answer and those it raises. New challenges wait, not the least of which is the identification of potential methods to regulate the structures and functions of key protein interaction networks. Ultimately, those building on the foundation presented here will advance our understanding of the brain and show us ways to abate the suffering caused by neurological and mental diseases.

Analyzing Biomolecular Interactions by Mass Spectrometry

Analyzing Biomolecular Interactions by Mass Spectrometry
  • Author : Jeroen Kool,Wilfried M. A. Niessen
  • Publisher :Unknown
  • Release Date :2015-05-04
  • Total pages :400
  • ISBN : 9783527334643
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Summary : This monograph reviews all relevant technologies based on mass spectrometry that are used to study or screen biological interactions in general. Arranged in three parts, the text begins by reviewing techniques nowadays almost considered classical, such as affinity chromatography and ultrafiltration, as well as the latest techniques. The second part focusses on all MS-based methods for the study of interactions of proteins with all classes of biomolecules. Besides pull down-based approaches, this section also emphasizes the use of ion mobility MS, capture-compound approaches, chemical proteomics and interactomics. The third and final part discusses other important technologies frequently employed in interaction studies, such as biosensors and microarrays. For pharmaceutical, analytical, protein, environmental and biochemists, as well as those working in pharmaceutical and analytical laboratories.

Introduction to Proteomics

Introduction to Proteomics
  • Author : Daniel Liebler
  • Publisher :Unknown
  • Release Date :2001-12-04
  • Total pages :198
  • ISBN : 0896039919
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Summary : Daniel C. Liebler masterfully introduces the science of proteomics by spelling out the basics of how one analyzes proteins and proteomes, and just how these approaches are then employed to investigate their roles in living systems. He explains the key concepts of proteomics, how the analytical instrumentation works, what data mining and other software tools do, and how these tools can be integrated to study proteomes. Also discussed are how protein and peptide separation techniques are applied in proteomics, how mass spectrometry is used to identify proteins, and how data analysis software enables protein identification and the mapping of modifications. In addition, there are proteomic approaches for analyzing differential protein expression, characterizing proteomic diversity, and dissecting protein-protein interactions and networks.

Protein Analysis using Mass Spectrometry

Protein Analysis using Mass Spectrometry
  • Author : Mike S. Lee,Qin C. Ji
  • Publisher :Unknown
  • Release Date :2017-06-19
  • Total pages :288
  • ISBN : 9781118605196
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Summary : Presents Practical Applications of Mass Spectrometry for Protein Analysis and Covers Their Impact on Accelerating Drug Discovery and Development Covers both qualitative and quantitative aspects of Mass Spectrometry protein analysis in drug discovery Principles, Instrumentation, Technologies topics include MS of peptides, proteins, and ADCs , instrumentation in protein analysis, nanospray technology in MS protein analysis, and automation in MS protein analysis Details emerging areas from drug monitoring to patient care such as Identification and validation of biomarkers for cancer, targeted MS approaches for biomarker validation, biomarker discovery, and regulatory perspectives Brings together the most current advances in the mass spectrometry technology and related method in protein analysis

Tandem Mass Spectrometry

Tandem Mass Spectrometry
  • Author : Ana Varela Coelho,Catarina De Matos Ferraz Franco
  • Publisher :Unknown
  • Release Date :2013-05-29
  • Total pages :206
  • ISBN : 9789535111368
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Summary : Tandem Mass Spectrometry - Molecular Characterization presents a comprehensive coverage of theory, instrumentation and description of experimental strategies and MS/MS data interpretation for the structural characterization of relevant molecular compounds. The areas covered include the analysis of drugs, metabolites, carbohydrates and protein post-translational modifications. The book series in Tandem Mass Spectrometry serves multiple groups of audiences; professional (academic and industry), graduate students and general readers interested in the use of modern mass spectrometry in solving critical questions of chemical and biological sciences.

Proteome Informatics

Proteome Informatics
  • Author : Conrad Bessant
  • Publisher :Unknown
  • Release Date :2016-11-15
  • Total pages :412
  • ISBN : 9781782626732
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Summary : The field of proteomics has developed rapidly over the past decade nurturing the need for a detailed introduction to the various informatics topics that underpin the main liquid chromatography tandem mass spectrometry (LC-MS/MS) protocols used for protein identification and quantitation. Proteins are a key component of any biological system, and monitoring proteins using LC-MS/MS proteomics is becoming commonplace in a wide range of biological research areas. However, many researchers treat proteomics software tools as a black box, drawing conclusions from the output of such tools without considering the nuances and limitations of the algorithms on which such software is based. This book seeks to address this situation by bringing together world experts to provide clear explanations of the key algorithms, workflows and analysis frameworks, so that users of proteomics data can be confident that they are using appropriate tools in suitable ways.

Hydrogen Exchange Mass Spectrometry of Proteins

Hydrogen Exchange Mass Spectrometry of Proteins
  • Author : David D. Weis
  • Publisher :Unknown
  • Release Date :2016-03-21
  • Total pages :376
  • ISBN : 9781118616499
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Summary : Hydrogen exchange mass spectrometry is widely recognized for its ability to probe the structure and dynamics of proteins. The application of this technique is becoming widespread due to its versatility for providing structural information about challenging biological macromolecules such as antibodies, flexible proteins and glycoproteins. Although the technique has been around for 25 years, this is the first definitive book devoted entirely to the topic. Hydrogen Exchange Mass Spectrometry of Proteins: Fundamentals, Methods and Applications brings into one comprehensive volume the theory, instrumentation and applications of Hydrogen Exchange Mass Spectrometry (HX-MS) - a technique relevant to bioanalytical chemistry, protein science and pharmaceuticals. The book provides a solid foundation in the basics of the technique and data interpretation to inform readers of current research in the method, and provides illustrative examples of its use in bio- and pharmaceutical chemistry and biophysics In-depth chapters on the fundamental theory of hydrogen exchange, and tutorial chapters on measurement and data analysis provide the essential background for those ready to adopt HX-MS. Expert users may advance their current understanding through chapters on methods including membrane protein analysis, alternative proteases, millisecond hydrogen exchange, top-down mass spectrometry, histidine exchange and method validation. All readers can explore the diversity of HX-MS applications in areas such as ligand binding, membrane proteins, drug discovery, therapeutic protein formulation, biocomparability, and intrinsically disordered proteins.

Mass Spectrometry for Biotechnology

Mass Spectrometry for Biotechnology
  • Author : Gary Siuzdak
  • Publisher :Unknown
  • Release Date :1996-02-12
  • Total pages :161
  • ISBN : 9780080535845
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Summary : If you investigate biological systems and might use mass spectrometry in your research but need to know more about it, this book is for you. It introduces the fundamental concepts of mass spectrometry and how mass spectrometers work. It also presents recent advancements particularly interesting to bio-researchers in an easy-to-understand manner that does not require extensive background in chemistry, math, or physics. Glossary of basic terms Abundant illustrations Examples of applications Practical tips on using mass spectrometric techniques Useful for peptide, protein, oligonucleotide, and carbohydrate analysis Simplified description of mass spectrometry including: Matrix-Assisted Laser Desorption/Ionization (MALDI) Electrospray Ionization (ESI) Fast Atom/Ion Bombardment (FAB)

Recent Advances in Proteomics Research

Recent Advances in Proteomics Research
  • Author : Sameh Magdeldin
  • Publisher :Unknown
  • Release Date :2015-11-11
  • Total pages :166
  • ISBN : 9789535122012
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Summary : Proteomics refers to the entire complement of proteins, including modification. This promising discipline has enabled us to study proteins from a massive and comprehensive point of view. The book Recent Advances in Proteomics Research describes in five sections some of the applications of proteomics. This fine research has been written by leading experts worldwide. This book is aimed mainly at those interested in proteins and in the field of proteins, particularly biochemists, biologists, pharmacists, advanced graduate students and postgraduate researchers.

Mass Spectrometry in Chemical Biology

Mass Spectrometry in Chemical Biology
  • Author : Norberto Peporine Lopes,Ricardo Roberto da Silva
  • Publisher :Unknown
  • Release Date :2017-11-22
  • Total pages :298
  • ISBN : 9781782625278
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Summary : Introduction; Introduction to mass spectrometry instrumentation and methods used in chemical biology; Metabolomics; Proteomics; Mass spectrometry to discover natural products; Applications of mass spectrometry in synthetic biology; Studying enzyme mechanisms using mass spectrometry: Introduction; Studying enzyme mechanisms using mass spectrometry: Applications; Databases; Future perspectives;

Analysis of Protein Post-Translational Modifications by Mass Spectrometry

Analysis of Protein Post-Translational Modifications by Mass Spectrometry
  • Author : John R. Griffiths,Richard D. Unwin
  • Publisher :Unknown
  • Release Date :2016-10-12
  • Total pages :416
  • ISBN : 9781119250883
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Summary : Covers all major modifications, including phosphorylation, glycosylation, acetylation, ubiquitination, sulfonation and and glycation Discussion of the chemistry behind each modification, along with key methods and references Contributions from some of the leading researchers in the field A valuable reference source for all laboratories undertaking proteomics, mass spectrometry and post-translational modification research

Modern Proteomics – Sample Preparation, Analysis and Practical Applications

Modern Proteomics – Sample Preparation, Analysis and Practical Applications
  • Author : Hamid Mirzaei,Martin Carrasco
  • Publisher :Unknown
  • Release Date :2016-12-14
  • Total pages :533
  • ISBN : 9783319414485
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Summary : 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.

Mass Spectrometry Handbook

Mass Spectrometry Handbook
  • Author : Mike S. Lee
  • Publisher :Unknown
  • Release Date :2012-04-16
  • Total pages :1368
  • ISBN : 9781118180723
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Summary : Due to its enormous sensitivity and ease of use, mass spectrometry has grown into the analytical tool of choice in most industries and areas of research. This unique reference provides an extensive library of methods used in mass spectrometry, covering applications of mass spectrometry in fields as diverse as drug discovery, environmental science, forensic science, clinical analysis, polymers, oil composition, doping, cellular research, semiconductor, ceramics, metals and alloys, and homeland security. The book provides the reader with a protocol for the technique described (including sampling methods) and explains why to use a particular method and not others. Essential for MS specialists working in industrial, environmental, and clinical fields.

Computational Methods for Mass Spectrometry Proteomics

Computational Methods for Mass Spectrometry Proteomics
  • Author : Ingvar Eidhammer,Kristian Flikka,Lennart Martens,Svein-Ole Mikalsen
  • Publisher :Unknown
  • Release Date :2008-02-28
  • Total pages :296
  • ISBN : 0470724293
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Summary : Proteomics is the study of the subsets of proteins present in different parts of an organism and how they change with time and varying conditions. Mass spectrometry is the leading technology used in proteomics, and the field relies heavily on bioinformatics to process and analyze the acquired data. Since recent years have seen tremendous developments in instrumentation and proteomics-related bioinformatics, there is clearly a need for a solid introduction to the crossroads where proteomics and bioinformatics meet. Computational Methods for Mass Spectrometry Proteomics describes the different instruments and methodologies used in proteomics in a unified manner. The authors put an emphasis on the computational methods for the different phases of a proteomics analysis, but the underlying principles in protein chemistry and instrument technology are also described. The book is illustrated by a number of figures and examples, and contains exercises for the reader. Written in an accessible yet rigorous style, it is a valuable reference for both informaticians and biologists. Computational Methods for Mass Spectrometry Proteomics is suited for advanced undergraduate and graduate students of bioinformatics and molecular biology with an interest in proteomics. It also provides a good introduction and reference source for researchers new to proteomics, and for people who come into more peripheral contact with the field.