Proteomics of Biological Systems

Proteomics of Biological Systems

This book shows how to use mass spectrometry to determine whether or not a protein has been correctly modified by the addition of a phosphate group.

Author: Bryan M. Ham

Publisher: John Wiley & Sons

ISBN: 9781118137031

Category: Science

Page: 376

View: 789

Phosphorylation is the addition of a phosphate (PO4) group to a protein or other organic molecule. Phosphorylation activates or deactivates many protein enzymes, causing or preventing the mechanisms of diseases such as cancer and diabetes. This book shows how to use mass spectrometry to determine whether or not a protein has been correctly modified by the addition of a phosphate group. It also provides a combination of detailed, step-by-step methodology for phosphoproteomic sample preparation, mass spectral instrumental analysis, and data interpretation approaches. Furthermore, it includes the use of bioinformatic Internet tools such as the Blast2GO gene ontology (GO) tool, used to help understand and interpret complex data collected in these studies.
Categories: Science

Proteomics for Biological Discovery

Proteomics for Biological Discovery

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 ...

Author: Timothy D. Veenstra

Publisher: John Wiley & Sons

ISBN: 9781119081722

Category: Science

Page: 348

View: 746

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.
Categories: Science

Proteome Research

Proteome Research

This book provides a clear conceptual description of each facet of proteomics, describes recent advances in technology and thinking in each area, and provides details of how these have been applied to a variety of biological problems.

Author: M.R. Wilkins

Publisher: Springer Science & Business Media

ISBN: 3540712410

Category: Science

Page: 268

View: 548

Proteomics is a multifaceted, interdisciplinary field which studies the complexity and dynamics of proteins in biological systems. It combines powerful separation and analytical technology with advanced informatics to understand the function of proteins in the cell and in the body. This book provides a clear conceptual description of each facet of proteomics, describes recent advances in technology and thinking in each area, and provides details of how these have been applied to a variety of biological problems. It is written by expert practitioners in the field, from industry, research institutions, and the clinic. It provides junior and experienced researchers with an invaluable proteomic reference, and gives fascinating glimpses of the future of this dynamic field.
Categories: Science

Proteomics in Systems Biology

Proteomics in Systems Biology

This detailed book highlights the diverse techniques and applications of proteomics in an accessible, informative, and concise manner.

Author: Jennifer Geddes-McAlister

Publisher: Humana

ISBN: 1071621238

Category: Science

Page: 370

View: 179

This detailed book highlights the diverse techniques and applications of proteomics in an accessible, informative, and concise manner. The collection features sample preparation from distinct extraction, quantification, enrichment, modification, as well as interactome methodology for the in-depth exploration of biological systems, and the application of proteomics to clinical, infectious disease, and agricultural practices. Moreover, cutting-edge bioinformatics tools, encompassing machine learning and data integration strategies, are explored, as are techniques expanding beyond proteomics into the realm of metabolomics. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting known pitfalls. Comprehensive and practical, Proteomics in Systems Biology: Methods and Protocols emphasizes the importance of proteomics and demonstrates a plethora of approaches for investigating diverse biological entities from a systems perspective.
Categories: Science

Proteomics and Systems Biology

Proteomics and Systems Biology

This volume of the Advances in Protein Chemistry and Structural Biology outlines current proteomic methodologies and discuss the challenges in future applications of systems biology in a number of biomedical/bioscience subjects.

Author: Rossen Donev

Publisher: Elsevier

ISBN: 9780323853194

Category: Medical

Page: 380

View: 193

Proteomics and Systems Biology, Volume 127 in the Advances in Protein Chemistry and Structural Biology series, outlines current proteomic methodologies and discuss the challenges in future applications of systems biology in a number of biomedical/bioscience subjects. In last few decades, advances in genomics, proteomics, metabolomics, glycomics, venomics, etc., have produced vast large-scale datasets that need to be analyzed with a single main objective of understanding biological systems as a whole. Such understanding will allow us to predict and characterize the dynamic properties of biological systems. Integrates experimental and computational methods for understanding biological systems as a whole Contains timely chapters written by well-renowned authorities in their field Includes well supported content that is accompanied by a number of high-quality illustrations, figures and tables, hence it targets a wide audience of specialists, researchers and students
Categories: Medical

Mass Spectrometry of Proteins

Mass Spectrometry of Proteins

This volume details new pipelines, workflows, and ways to process data that allow for new frontiers in proteomics to be pushed forward.

Author: Caroline A. Evans

Publisher: Humana

ISBN: 1493992341

Category: Science

Page: 264

View: 714

New insights into modern medicine and systems biology are enabled by innovative protocols and advanced technologies in mass spectrometry-based proteomics. This volume details new pipelines, workflows, and ways to process data that allow for new frontiers in proteomics to be pushed forward. With applications to biomarker discovery, interactions between proteins, between biological systems, dynamics of post-translational modifications among others, new protocols have been developed and iteratively refined to probe the endless complexity of the proteome in ever greater details. This volume deals with methods for data dependent and data independent mass spectrometry analyses. Valuable, first-hand information is provided from designing experiments, sample preparation and analysis, exploitation of public datasets and carrying out reproducible data pipelines, using modern computational tools such as Galaxy or Jupyter. 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 tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Mass Spectrometry of Proteins: Methods and Protocols aims to ensure successful results in the further study of this vital field.
Categories: Science

Biology of Proteomics

Biology of Proteomics

The purpose of this book is to emphasize the methods in which proteomics is presently being employed to address issues in the biological sciences.

Author: Charles Malkoff

Publisher:

ISBN: 1632391015

Category: Science

Page: 278

View: 151

Proteomics has been at the center of many researches being conducted recently. In the past few years, proteomics have expanded from an exceptionally scientific attempt to an extensively used method. The purpose of this book is to emphasize the methods in which proteomics is presently being employed to address issues in the biological sciences. Although there have been major advances in methods involving the utilization of proteomics in biology, elementary approaches concerning essential sample visualization and protein recognition still represent the principle techniques used by the vast majority of researchers to resolve problems in biology. The data provided in this book extends from the functions of proteomics in specific biological fields to novel researches that have employed a proteomics-based method. Together, they show the power of recognized and rising proteomic methods to exemplify compound biological systems.
Categories: Science

Application of Selected Reaction Monitoring to Highly Multiplexed Targeted Quantitative Proteomics

Application of Selected Reaction Monitoring to Highly Multiplexed Targeted Quantitative Proteomics

A key experiment in biomedical research is monitoring the expression of different proteins in order to detect changes that occur in biological systems under different experimental conditions.

Author: Michael Kinter

Publisher: Springer

ISBN: 1461486653

Category: Medical

Page: 65

View: 298

A key experiment in biomedical research is monitoring the expression of different proteins in order to detect changes that occur in biological systems under different experimental conditions. The method that is most widely used is the Western blot analysis. While Western blot is a workhorse in laboratories studying protein expression and has several advantages, it also has a number of significant limitations. In particular, the method is semi-quantitative with limited dynamic range. Western blot focuses on a single protein per sample with only a small number of representative samples analyzed in an experiment. New quantitative tools have been needed for some time to at least supplement, & possibly replace, the Western blot. Mass spectrometric methods have begun to compete with Western blot for routine quantitative analyses of proteins. One of these methods is based on the tandem mass spectrometry technique of selected reaction monitoring (SRM), which is also called multiple reaction monitoring (MRM). Selected reaction monitoring is actually an older tandem mass spectrometry technique, first described in the late 70s, that is widely utilized in the quantitative analysis of small molecules like drugs & metabolites. The use of selected reaction monitoring for the quantitative analysis of proteins has a number of advantages. Most importantly, it is fundamentally quantitative with a wide dynamic range. The output of the analysis is a numerical result that can range over several orders of magnitude. Other advantages include sufficient specificity & sensitivity to detect low abundance proteins in complex mixtures. Finally, selected reaction monitoring can be multiplexed to allow the quantitative analysis of relatively large numbers of proteins in a single sample in a single experiment. This Brief will explain both the theoretical & experimental details of the selected reaction monitoring experiment as it is applied to proteins. ​
Categories: Medical

Proteomics Importance for the Future of Genetics Research

Proteomics  Importance for the Future of Genetics Research

Academic Paper from the year 2020 in the subject Biology - Genetics / Gene Technology, grade: 14.0, University of Lagos (University of Lagos), course: Cell Biology and Genetics, language: English, abstract: A huge number of genes within the ...

Author: Kehinde Sowunmi

Publisher: GRIN Verlag

ISBN: 9783346120106

Category: Science

Page: 19

View: 213

Academic Paper from the year 2020 in the subject Biology - Genetics / Gene Technology, grade: 14.0, University of Lagos (University of Lagos), course: Cell Biology and Genetics, language: English, abstract: A huge number of genes within the human genome code are proteins that mediate and/or control genetics processes. Although a large body of information on the number of genes, on chromosomal localisation, gene structure and function has been gathered, we are far from understanding the orchestrated way of how they make metabolism. Nevertheless, based on the genetic information emerging on a daily basis, we are offered fantastic new tools that allow us new insights into the molecular basis of human metabolism under normal as well as pathophysiological conditions. Recent technological advancements have made it possible to analyse simultaneously large sets of mRNA and/or proteins expressed in a biological sample or to define genetic heterogeneity that may be important for the individual response of an organism to changes in its nutritional environment. Applications of the new techniques of genome and proteome analysis are central for the development of nutritional sciences in the next decade and its integration into the rapidly developing era of functional genomics. The proteome is the entire set of proteins that are produced or modified by an organism or system. This varies with time and distinct requirements, or stresses, that a cell or organism undergoes. Proteomics is an interdisciplinary domain that has benefitted greatly from the genetic information of the Human Genome Project; it also covers emerging scientific research and the exploration of proteomes from the overall level of intracellular protein composition, structure, and its own unique activity patterns. It is an important component of functional genomics. While proteomics generally refers to the large-scale experimental analysis of proteins, it is often specifically used for protein purification and mass spectrometry. After genomics and transcriptomics, proteomics is the next step in the study of biological systems. It is more complicated than genomics because an organism's genome is more or less constant, whereas the proteome differs from cell to cell and from time to time. Distinct genes are expressed in different cell types, which means that even the basic set of proteins that are produced in a cell needs to be identified.
Categories: Science

Proteomics of Microorganisms

Proteomics of Microorganisms

Starting with the discovery of penicillin, other antibiotics, and insulin, the quest for understanding and use of biological systems, i. e. , microorganisms and ani mal tissue, for the production of value products has lead to a dramatic ...

Author: Michael Hecker

Publisher: Springer Science & Business Media

ISBN: 9783540005469

Category: Science

Page: 234

View: 296

Starting with the discovery of penicillin, other antibiotics, and insulin, the quest for understanding and use of biological systems, i. e. , microorganisms and ani mal tissue, for the production of value products has lead to a dramatic increase in microbiological and bioengineering research in the last decades. Chemical and pharmaceutical companies quickly realized the huge commercial potential of these bioproducts and have spent millions of US dollars on R &D as well as on a build up of production facilities. Although there was limited knowledge about the cell's molecular mechanisms, which are the basis for the formation of the desired products, products from fermentation and extraction of biological matrices were a success right from the start. R&D projects within industry and academia on the continuous improvement of production processes, especially microbial productivity and down stream processing, allowed a fast return of investment and secured competitiveness in the market. Whereas the focus of such research projects was mainly on the discovery of strains with higher pro ductivity for the product of interest, e. g. , antibiotics, a lot of expertise and knowledge was generated allowing the use of biotechnological products and processes outside the pharmaceutical arena. The tremendous increase in knowl edge and the technological developments in microbial genetics where driven by these research projects and, accompanied with the advancements in nucleotide chemistry leading to a much better understanding of intracellular processes, served as a basis for modern molecular biology and recombinant biotech nology.
Categories: Science