Statistical Analysis In Proteomics

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Statistical Analysis in Proteomics

Klaus Jung
Statistical Analysis in Proteomics Book PDF

Author : Klaus Jung
Publisher : Humana
Page : 0 pages
File Size : 53,5 Mb
Release : 2015-11-10
Category : Science
ISBN : 1493931059

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Statistical Analysis in Proteomics by Klaus Jung Pdf

This valuable collection aims to provide a collection of frequently used statistical methods in the field of proteomics. Although there is a large overlap between statistical methods for the different ‘omics’ fields, methods for analyzing data from proteomics experiments need their own specific adaptations. To satisfy that need, Statistical Analysis in Proteomics focuses on the planning of proteomics experiments, the preprocessing and analysis of the data, the integration of proteomics data with other high-throughput data, as well as some special topics. Written for the highly successful Methods in Molecular Biology series, the chapters contain the kind of detail and expert implementation advice that makes for a smooth transition to the laboratory. Practical and authoritative, Statistical Analysis in Proteomics serves as an ideal reference for statisticians involved in the planning and analysis of proteomics experiments, beginners as well as advanced researchers, and also for biologists, biochemists, and medical researchers who want to learn more about the statistical opportunities in the analysis of proteomics data.

Statistical Analysis in Proteomics

Klaus Jung
Statistical Analysis in Proteomics Book PDF

Author : Klaus Jung
Publisher : Humana Press
Page : 313 pages
File Size : 42,7 Mb
Release : 2019-03-27
Category : Science
ISBN : 1493979876

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Statistical Analysis in Proteomics by Klaus Jung Pdf

This valuable collection aims to provide a collection of frequently used statistical methods in the field of proteomics. Although there is a large overlap between statistical methods for the different ‘omics’ fields, methods for analyzing data from proteomics experiments need their own specific adaptations. To satisfy that need, Statistical Analysis in Proteomics focuses on the planning of proteomics experiments, the preprocessing and analysis of the data, the integration of proteomics data with other high-throughput data, as well as some special topics. Written for the highly successful Methods in Molecular Biology series, the chapters contain the kind of detail and expert implementation advice that makes for a smooth transition to the laboratory. Practical and authoritative, Statistical Analysis in Proteomics serves as an ideal reference for statisticians involved in the planning and analysis of proteomics experiments, beginners as well as advanced researchers, and also for biologists, biochemists, and medical researchers who want to learn more about the statistical opportunities in the analysis of proteomics data.

Proteomics Data Analysis

Daniela Cecconi
Proteomics Data Analysis Book PDF

Author : Daniela Cecconi
Publisher : Unknown
Page : 326 pages
File Size : 45,7 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.

Statistical Analysis of Proteomics, Metabolomics, and Lipidomics Data Using Mass Spectrometry

Susmita Datta,Bart J. A. Mertens
Statistical Analysis of Proteomics Metabolomics and Lipidomics Data Using Mass Spectrometry Book PDF

Author : Susmita Datta,Bart J. A. Mertens
Publisher : Springer
Page : 295 pages
File Size : 47,9 Mb
Release : 2016-12-15
Category : Medical
ISBN : 9783319458090

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Statistical Analysis of Proteomics, Metabolomics, and Lipidomics Data Using Mass Spectrometry by Susmita Datta,Bart J. A. Mertens Pdf

This book presents an overview of computational and statistical design and analysis of mass spectrometry-based proteomics, metabolomics, and lipidomics data. This contributed volume provides an introduction to the special aspects of statistical design and analysis with mass spectrometry data for the new omic sciences. The text discusses common aspects of design and analysis between and across all (or most) forms of mass spectrometry, while also providing special examples of application with the most common forms of mass spectrometry. Also covered are applications of computational mass spectrometry not only in clinical study but also in the interpretation of omics data in plant biology studies. Omics research fields are expected to revolutionize biomolecular research by the ability to simultaneously profile many compounds within either patient blood, urine, tissue, or other biological samples. Mass spectrometry is one of the key analytical techniques used in these new omic sciences. Liquid chromatography mass spectrometry, time-of-flight data, and Fourier transform mass spectrometry are but a selection of the measurement platforms available to the modern analyst. Thus in practical proteomics or metabolomics, researchers will not only be confronted with new high dimensional data types—as opposed to the familiar data structures in more classical genomics—but also with great variation between distinct types of mass spectral measurements derived from different platforms, which may complicate analyses, comparison, and interpretation of results.

Statistical Analysis of Proteomic Data

Thomas Burger
Statistical Analysis of Proteomic Data Book PDF

Author : Thomas Burger
Publisher : Springer Nature
Page : 398 pages
File Size : 51,7 Mb
Release : 2022-10-29
Category : Science
ISBN : 9781071619674

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Statistical Analysis of Proteomic Data by Thomas Burger Pdf

This book explores the most important processing steps of proteomics data analysis and presents practical guidelines, as well as software tools, that are both user-friendly and state-of-the-art in chemo- and biostatistics. Beginning with methods to control the false discovery rate (FDR), the volume continues with chapters devoted to software suites for constructing quantitation data tables, missing value related issues, differential analysis software, and more. Written for the highly successful Methods in Molecular Biology series, chapters include the kind of detail and implementation advice that leads to successful results. Authoritative and practical, Statistical Analysis of Proteomic Data: Methods and Tools serves as an ideal guide for proteomics researchers looking to extract the best of their data with state-of-the art tools while also deepening their understanding of data analysis.

Mass Spectrometry Data Analysis in Proteomics

Rune Matthiesen
Mass Spectrometry Data Analysis in Proteomics Book PDF

Author : Rune Matthiesen
Publisher : Unknown
Page : 405 pages
File Size : 51,5 Mb
Release : 2013
Category : Mass spectrometry
ISBN : 1627033920

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Mass Spectrometry Data Analysis in Proteomics by Rune Matthiesen Pdf

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.

Computational and Statistical Methods for Protein Quantification by Mass Spectrometry

Ingvar Eidhammer,Harald Barsnes,Geir Egil Eide,Lennart Martens
Computational and Statistical Methods for Protein Quantification by Mass Spectrometry Book PDF

Author : Ingvar Eidhammer,Harald Barsnes,Geir Egil Eide,Lennart Martens
Publisher : John Wiley & Sons
Page : 290 pages
File Size : 53,5 Mb
Release : 2012-12-10
Category : Mathematics
ISBN : 9781118493779

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Computational and Statistical Methods for Protein Quantification by Mass Spectrometry by Ingvar Eidhammer,Harald Barsnes,Geir Egil Eide,Lennart Martens Pdf

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.

Mass Spectrometry Data Analysis in Proteomics

Rune Matthiesen
Mass Spectrometry Data Analysis in Proteomics Book PDF

Author : Rune Matthiesen
Publisher : Springer Science & Business Media
Page : 322 pages
File Size : 41,8 Mb
Release : 2008-02-02
Category : Science
ISBN : 9781597452755

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Mass Spectrometry Data Analysis in Proteomics by Rune Matthiesen Pdf

This is an in-depth guide to the theory and practice of analyzing raw mass spectrometry (MS) data in proteomics. The volume outlines available bioinformatics programs, algorithms, and databases available for MS data analysis. General guidelines for data analysis using search engines such as Mascot, Xtandem, and VEMS are provided, with specific attention to identifying poor quality data and optimizing search parameters.

Data Analysis and Visualization in Genomics and Proteomics

Francisco Azuaje,Joaquin Dopazo
Data Analysis and Visualization in Genomics and Proteomics Book PDF

Author : Francisco Azuaje,Joaquin Dopazo
Publisher : John Wiley & Sons
Page : 284 pages
File Size : 50,6 Mb
Release : 2005-06-24
Category : Science
ISBN : 9780470094402

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Data Analysis and Visualization in Genomics and Proteomics by Francisco Azuaje,Joaquin Dopazo Pdf

Data Analysis and Visualization in Genomics and Proteomics is the first book addressing integrative data analysis and visualization in this field. It addresses important techniques for the interpretation of data originating from multiple sources, encoded in different formats or protocols, and processed by multiple systems. One of the first systematic overviews of the problem of biological data integration using computational approaches This book provides scientists and students with the basis for the development and application of integrative computational methods to analyse biological data on a systemic scale Places emphasis on the processing of multiple data and knowledge resources, and the combination of different models and systems

Quantitative Methods in Proteomics

Katrin Marcus
Quantitative Methods in Proteomics Book PDF

Author : Katrin Marcus
Publisher : Humana Press
Page : 539 pages
File Size : 54,5 Mb
Release : 2012-06-08
Category : Science
ISBN : 1617798843

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Quantitative Methods in Proteomics by Katrin Marcus Pdf

Protein modifications and changes made to them, as well as the quantities of expressed proteins, can define the various functional stages of the cell. Accordingly, perturbations can lead to various diseases and disorders. As a result, it has become paramount to be able to detect and monitor post-translational modifications and to measure the abundance of proteins within the cell with extreme sensitivity. While protein identification is an almost routine requirement nowadays, reliable techniques for quantifying unmodified proteins (including those that escape detection under standard conditions, such as protein isoforms and membrane proteins) is not routine. Quantitative Methods in Proteomics gives a detailed survey of topics and methods on the principles underlying modern protein analysis, from statistical issues when planning proteomics experiments, to gel-based and mass spectrometry-based applications. The quantification of post-translational modifications is also addressed, followed by the “hot” topics of software and data analysis, as well as various overview chapters which provide a comprehensive overview of existing methods in quantitative proteomics. Written in the successful Methods in Molecular BiologyTM series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible protocols, and notes on troubleshooting and avoiding known pitfalls. Authoritative and easily accessible, Quantitative Methods in Proteomics serves as a comprehensive and competent overview of the important and still growing field of quantitative proteomics.

Fundamentals of Data Mining in Genomics and Proteomics

Werner Dubitzky,Martin Granzow,Daniel P. Berrar
Fundamentals of Data Mining in Genomics and Proteomics Book PDF

Author : Werner Dubitzky,Martin Granzow,Daniel P. Berrar
Publisher : Springer Science & Business Media
Page : 300 pages
File Size : 40,8 Mb
Release : 2007-04-13
Category : Science
ISBN : 9780387475097

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Fundamentals of Data Mining in Genomics and Proteomics by Werner Dubitzky,Martin Granzow,Daniel P. Berrar Pdf

This book presents state-of-the-art analytical methods from statistics and data mining for the analysis of high-throughput data from genomics and proteomics. It adopts an approach focusing on concepts and applications and presents key analytical techniques for the analysis of genomics and proteomics data by detailing their underlying principles, merits and limitations.

Introducing Proteomics

Josip Lovric
Introducing Proteomics Book PDF

Author : Josip Lovric
Publisher : John Wiley & Sons
Page : 310 pages
File Size : 41,7 Mb
Release : 2011-06-17
Category : Science
ISBN : 9781119957195

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Introducing Proteomics by Josip Lovric Pdf

Introducing Proteomics gives a concise and coherent overview of every aspect of current proteomics technology, which is a rapidly developing field that is having a major impact within the life and medical sciences. This student-friendly book, based on a successful course developed by the author, provides its readers with sufficient theoretical background to be able to plan, prepare, and analyze a proteomics study. The text covers the following: Separation Technologies Analysis of Peptides/Proteins by Mass Spectrometry Strategies in Proteomics This contemporary text also includes numerous examples and explanations for why particular strategies are better than others for certain applications. In addition, Introducing Proteomics includes extensive references and a list of relevant proteomics information sources; essential for any student. This no-nonsense approach to the subject tells students exactly what they need to know, leaving out unnecessary information. The student companion site enhances learning and provides answers to the end of chapter problems. "I think this book will be a popular and valuable resource for students and newcomers to the field who would like to have an overview and initial understanding of what proteomics is about. The contents are well organized and address the major issues." —Professor Walter Kolch, Director, Systems Biology Ireland & Conway Institute, University College Dublin Companion Website www.wiley.com/go/lovric

Modern Proteomics – Sample Preparation, Analysis and Practical Applications

Hamid Mirzaei,Martin Carrasco
Modern Proteomics Sample Preparation Analysis and Practical Applications Book PDF

Author : Hamid Mirzaei,Martin Carrasco
Publisher : Springer
Page : 533 pages
File Size : 55,9 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.

Processing Metabolomics and Proteomics Data with Open Software

Robert Winkler
Processing Metabolomics and Proteomics Data with Open Software Book PDF

Author : Robert Winkler
Publisher : Royal Society of Chemistry
Page : 460 pages
File Size : 47,5 Mb
Release : 2020-03-19
Category : Science
ISBN : 9781788017213

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Processing Metabolomics and Proteomics Data with Open Software by Robert Winkler Pdf

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.

Proteomics for Biomarker Discovery

Virginie Brun,Yohann Couté
Proteomics for Biomarker Discovery Book PDF

Author : Virginie Brun,Yohann Couté
Publisher : Humana Press
Page : 293 pages
File Size : 49,5 Mb
Release : 2019-05-04
Category : Science
ISBN : 1493991639

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Proteomics for Biomarker Discovery by Virginie Brun,Yohann Couté Pdf

This volume presents modern and enhanced methods that detail techniques to perform proteomics analyses dedicated to biomarker discovery for human health. Chapters guide readers through pre/post analytical factors, protocols for the preparation of extracellular vesicles and exosomes, and various analytical pipelines including Data Independent Acquisition (DIA), discovery, as well as targeted and top-down proteomics analysis workflows. Bioinformatics tools and workflows to select and evaluate candidate biomarkers or combinations of biomarkers are also presented. 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, Proteomics for Biomarker Discovery: Methods and Protocols aims to ensure successful results in the further study of this vital field.