Processing Metabolomics And Proteomics Data With Open Software

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Processing Metabolomics and Proteomics Data with Open Software

Author : Robert Winkler
Publisher : Royal Society of Chemistry
ISBN 13 : 1788017218
Total Pages : 460 pages
Book Rating : 4.7/5 (88 download)

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Book Synopsis Processing Metabolomics and Proteomics Data with Open Software by : Robert Winkler

Download or read book Processing Metabolomics and Proteomics Data with Open Software written by Robert Winkler and published by Royal Society of Chemistry. This book was released on 2020-03-19 with total page 460 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.

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

Author : Susmita Datta
Publisher : Springer
ISBN 13 : 3319458094
Total Pages : 295 pages
Book Rating : 4.3/5 (194 download)

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Book Synopsis Statistical Analysis of Proteomics, Metabolomics, and Lipidomics Data Using Mass Spectrometry by : Susmita Datta

Download or read book Statistical Analysis of Proteomics, Metabolomics, and Lipidomics Data Using Mass Spectrometry written by Susmita Datta and published by Springer. This book was released on 2016-12-15 with total page 295 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.

Mass Spectrometry in Food Analysis

Author : Leo M. L. Nollet
Publisher : CRC Press
ISBN 13 : 1000539253
Total Pages : 462 pages
Book Rating : 4.0/5 (5 download)

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Book Synopsis Mass Spectrometry in Food Analysis by : Leo M. L. Nollet

Download or read book Mass Spectrometry in Food Analysis written by Leo M. L. Nollet and published by CRC Press. This book was released on 2022-03-21 with total page 462 pages. Available in PDF, EPUB and Kindle. Book excerpt: The quality and safety of food are crucial for human nutrition. However, evaluating the chemical composition of food is challenging for the analyst and requires powerful methods. Chromatography and mass spectrometry (MS) is the gold standard for analyzing complex food samples, including raw materials and intermediate and finished products. Mass Spectrometry in Food Analysis covers the MS-based analysis of different aspects of food quality, which include nutritional value, profile of macronutrients (proteins, lipids, and carbohydrates), micronutrients (vitamins), and nutraceutical active compounds. Additionally, sensory quality, flavor, food pigments, safety, and detection of pesticides, contact materials, veterinary drugs and pharmaceuticals, organic pollutants, and pathogens are covered. Key Features: Contains the basics of mass spectrometry and experimental strategies Explores determination of macro- and micronutrients Analyzes sensory and nutraceutical food quality Discusses detection of contaminants and proof of authenticity Presents emerging methods for food analysis This book contains an introductory section that explains the basics of MS and the difference between targeted and untargeted strategies for beginners. Further, it points out new analytical challenges, such as monitoring contaminants of emerging concern, and presents innovative techniques (e.g., ambient ionization MS and data mining). Also available in the Food Analysis & Properties Series: Nanoemulsions in Food Technology: Development, Characterization, and Applications, edited by Javed Ahmad and Leo M.L. Nollet (ISBN: 978-0-367-61492-8) Sequencing Technologies in Microbial Food Safety and Quality, edited by Devarajan Thangadurai, Leo M.L. Nollet, Saher Islam, and Jeyabalan Sangeetha (ISBN: 978-0-367-35118-2) Chiral Organic Pollutants: Monitoring and Characterization in Food and the Environment, edited by Edmond Sanganyado, Basil K. Munjanja, and Leo M.L. Nollet (ISBN: 978-0-367-42923-2) For a complete list of books in this series, please visit our website at: www.crcpress.com/Food-Analysis--Properties/book-series/CRCFOODANPRO

Plant Metabolomics

Author : Kazuki Saito
Publisher : Springer Science & Business Media
ISBN 13 : 3540297820
Total Pages : 351 pages
Book Rating : 4.5/5 (42 download)

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Book Synopsis Plant Metabolomics by : Kazuki Saito

Download or read book Plant Metabolomics written by Kazuki Saito and published by Springer Science & Business Media. This book was released on 2006-06-29 with total page 351 pages. Available in PDF, EPUB and Kindle. Book excerpt: Metabolomics – which deals with all metabolites of an organism – is a rapidly-emerging sector of post-genome research fields. It plays significant roles in a variety of fields from medicine to agriculture and holds a fundamental position in functional genomics studies and their application in plant biotechnology. This volume comprehensively covers plant metabolomics for the first time. The chapters offer cutting-edge information on analytical technology, bioinformatics and applications. They were all written by leading researchers who have been directly involved in plant metabolomics research throughout the world. Up-to-date information and future developments are described, thereby producing a volume which is a landmark of plant metabolomics research and a beneficial guideline to graduate students and researchers in academia, industry, and technology transfer organizations in all plant science fields.

Advanced Mass Spectrometry-based Analytical Separation Techniques for Probing the Polar Metabolome

Author : Rawi Ramautar
Publisher : Royal Society of Chemistry
ISBN 13 : 1839163534
Total Pages : 367 pages
Book Rating : 4.8/5 (391 download)

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Book Synopsis Advanced Mass Spectrometry-based Analytical Separation Techniques for Probing the Polar Metabolome by : Rawi Ramautar

Download or read book Advanced Mass Spectrometry-based Analytical Separation Techniques for Probing the Polar Metabolome written by Rawi Ramautar and published by Royal Society of Chemistry. This book was released on 2021-07-13 with total page 367 pages. Available in PDF, EPUB and Kindle. Book excerpt: The efficient analysis of polar and charged metabolites in biological samples remains a huge challenge in the field of metabolomics. Over the past years, novel mass spectrometry-based analytical tools have been developed to enable the sensitive and efficient profiling of polar ionogenic metabolites in various biological samples. This book gives the reader a comprehensive overview of these recent technological developments. Topics covered include the use of chemical labelling strategies for allowing the analysis of polar metabolites using reversed-phase liquid chromatography–mass spectrometry (RPLC-MS) and the latest methodological developments in RPLC-MS, hydrophilic interaction liquid chromatography (HILIC)-MS and ion-pair LC-MS approaches. Attention is also paid to developments in nano-LC-MS and capillary electrophoresis–mass spectrometry methods specifically for profiling polar metabolites in small volume biological samples. The utility of ion-mobility MS and NMR spectroscopy will also be outlined. Sample preparation is the key part in the analytical workflow employed for metabolomics. Therefore, ample emphasis will be given on recent solid-phase extraction and solid-phase micro-extraction methods. Finally, analytical techniques for chiral metabolic profiling will also be considered. Discussing the state-of-the-art of the proposed topics in one single book for probing the polar metabolome, using relevant examples, is unique and needed in the metabolomics field. This book has relevance and appeal to an international audience of analytical and biomedical researchers in industry and academia.

Metabolomics Data Processing and Data Analysis-Current Best Practices

Author : Justin Van Der Hooft
Publisher : Mdpi AG
ISBN 13 : 9783036511948
Total Pages : 276 pages
Book Rating : 4.5/5 (119 download)

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Book Synopsis Metabolomics Data Processing and Data Analysis-Current Best Practices by : Justin Van Der Hooft

Download or read book Metabolomics Data Processing and Data Analysis-Current Best Practices written by Justin Van Der Hooft and published by Mdpi AG. This book was released on 2021-09-10 with total page 276 pages. Available in PDF, EPUB and Kindle. Book excerpt: Metabolomics data analysis strategies are central to transforming raw metabolomics data files into meaningful biochemical interpretations that answer biological questions or generate novel hypotheses. This book contains a variety of papers from a Special Issue around the theme "Best Practices in Metabolomics Data Analysis". Reviews and strategies for the whole metabolomics pipeline are included, whereas key areas such as metabolite annotation and identification, compound and spectral databases and repositories, and statistical analysis are highlighted in various papers. Altogether, this book contains valuable information for researchers just starting in their metabolomics career as well as those that are more experienced and look for additional knowledge and best practice to complement key parts of their metabolomics workflows.

Proteomics Data Analysis

Author : Daniela Cecconi
Publisher :
ISBN 13 : 9781071616413
Total Pages : 326 pages
Book Rating : 4.6/5 (164 download)

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Book Synopsis Proteomics Data Analysis by : Daniela Cecconi

Download or read book Proteomics Data Analysis written by Daniela Cecconi and published by . This book was released on 2021 with total page 326 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.

Detection and Analysis of Microorganisms by Mass Spectrometry

Author : Jia Yi
Publisher : Royal Society of Chemistry
ISBN 13 : 1839167637
Total Pages : 361 pages
Book Rating : 4.8/5 (391 download)

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Book Synopsis Detection and Analysis of Microorganisms by Mass Spectrometry by : Jia Yi

Download or read book Detection and Analysis of Microorganisms by Mass Spectrometry written by Jia Yi and published by Royal Society of Chemistry. This book was released on 2023-10-06 with total page 361 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Applications of Mass Spectrometry for the Provision of Forensic Intelligence: State-of-the-art and Perspectives

Author : Simona Francese
Publisher : Royal Society of Chemistry
ISBN 13 : 1839168110
Total Pages : 322 pages
Book Rating : 4.8/5 (391 download)

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Book Synopsis Applications of Mass Spectrometry for the Provision of Forensic Intelligence: State-of-the-art and Perspectives by : Simona Francese

Download or read book Applications of Mass Spectrometry for the Provision of Forensic Intelligence: State-of-the-art and Perspectives written by Simona Francese and published by Royal Society of Chemistry. This book was released on 2023-12-20 with total page 322 pages. Available in PDF, EPUB and Kindle. Book excerpt:

MALDI Mass Spectrometry Imaging

Author : Tiffany Siegel Porta
Publisher : Royal Society of Chemistry
ISBN 13 : 1839162414
Total Pages : 541 pages
Book Rating : 4.8/5 (391 download)

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Book Synopsis MALDI Mass Spectrometry Imaging by : Tiffany Siegel Porta

Download or read book MALDI Mass Spectrometry Imaging written by Tiffany Siegel Porta and published by Royal Society of Chemistry. This book was released on 2021-12-03 with total page 541 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book gathers knowledge about matrix-assisted laser desorption ionisation (MALDI) mass spectrometry imaging for postgraduate and professional researchers in academia and in industry where it has direct application to clinical research.

Ion Mobility-Mass Spectrometry

Author : Alison E Ashcroft
Publisher : Royal Society of Chemistry
ISBN 13 : 1839162899
Total Pages : 547 pages
Book Rating : 4.8/5 (391 download)

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Book Synopsis Ion Mobility-Mass Spectrometry by : Alison E Ashcroft

Download or read book Ion Mobility-Mass Spectrometry written by Alison E Ashcroft and published by Royal Society of Chemistry. This book was released on 2021-11-11 with total page 547 pages. Available in PDF, EPUB and Kindle. Book excerpt: Over the last decade, the use of ion mobility separation in combination with mass spectrometry analysis has developed significantly. This technique adds a unique extra dimension enabling the in-depth analysis of a wide range of complex samples in the areas of the chemical and biological sciences. Providing a comprehensive guide to the technique, each chapter is written by an internationally recognised expert and with numerous different commercial platforms to choose from, this book will help the end users understand the practicalities of using different instruments for different ion mobility purposes. The first section provides a detailed account of the fundamentals behind the technique and the current range of available instrumentation. The second section focusses on the wide range of applications that have benefitted from ion mobility – mass spectrometry and includes topics taken from current research in the pharmaceutical, metabolomics, glycomics, and structural molecular biology fields. The book is primarily aimed at researchers, appealing to practising chemists and biochemists, as well as those in the pharmaceutical and medical fields.

Advanced Fragmentation Methods in Biomolecular Mass Spectrometry

Author : Frederik Lermyte
Publisher : Royal Society of Chemistry
ISBN 13 : 1839161108
Total Pages : 359 pages
Book Rating : 4.8/5 (391 download)

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Book Synopsis Advanced Fragmentation Methods in Biomolecular Mass Spectrometry by : Frederik Lermyte

Download or read book Advanced Fragmentation Methods in Biomolecular Mass Spectrometry written by Frederik Lermyte and published by Royal Society of Chemistry. This book was released on 2020-12-11 with total page 359 pages. Available in PDF, EPUB and Kindle. Book excerpt: Breaking down large biomolecules into fragments in a controlled manner is key to modern biomolecular mass spectrometry. This book is a high-level introduction, as well as a reference work for experienced users, to ECD, ETD, EDD, NETD, UVPD, SID, and other advanced fragmentation methods. It provides a comprehensive overview of their history, mechanisms, instrumentation, and key applications. With contributions from leading experts, this book will act as an authoritative guide to these methods. Aimed at postgraduate and professional researchers, mainly in academia, but also in industry, it can be used as supplementary reading for advanced students on mass spectrometry or analytical (bio)chemistry courses.

Proteomic and Metabolomic Approaches to Biomarker Discovery

Author : Haleem J. Issaq
Publisher : Academic Press
ISBN 13 : 0128197889
Total Pages : 504 pages
Book Rating : 4.1/5 (281 download)

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Book Synopsis Proteomic and Metabolomic Approaches to Biomarker Discovery by : Haleem J. Issaq

Download or read book Proteomic and Metabolomic Approaches to Biomarker Discovery written by Haleem J. Issaq and published by Academic Press. This book was released on 2019-10-24 with total page 504 pages. Available in PDF, EPUB and Kindle. Book excerpt: Proteomic and Metabolomic Approaches to Biomarker Discovery, Second Edition covers techniques from both proteomics and metabolomics and includes all steps involved in biomarker discovery, from study design to study execution. The book describes methods and presents a standard operating procedure for sample selection, preparation and storage, as well as data analysis and modeling. This new standard effectively eliminates the differing methodologies used in studies and creates a unified approach. Readers will learn the advantages and disadvantages of the various techniques discussed, as well as potential difficulties inherent to all steps in the biomarker discovery process. This second edition has been fully updated and revised to address recent advances in MS and NMR instrumentation, high-field NMR, proteomics and metabolomics for biomarker validation, clinical assays of biomarkers and clinical MS and NMR, identifying microRNAs and autoantibodies as biomarkers, MRM-MS assay development, top-down MS, glycosylation-based serum biomarkers, cell surface proteins in biomarker discovery, lipodomics for cancer biomarker discovery, and strategies to design studies to identify predictive biomarkers in cancer research. Addresses the full range of proteomic and metabolomic methods and technologies used for biomarker discovery and validation Covers all steps involved in biomarker discovery, from study design to study execution Serves as a vital resource for biochemists, biologists, analytical chemists, bioanalytical chemists, clinical and medical technicians, researchers in pharmaceuticals and graduate students

Microbiome-Based Decontamination of Environmental Pollutants

Author : Ajay Kumar
Publisher : Elsevier
ISBN 13 : 0443217807
Total Pages : 495 pages
Book Rating : 4.4/5 (432 download)

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Book Synopsis Microbiome-Based Decontamination of Environmental Pollutants by : Ajay Kumar

Download or read book Microbiome-Based Decontamination of Environmental Pollutants written by Ajay Kumar and published by Elsevier. This book was released on 2024-04-01 with total page 495 pages. Available in PDF, EPUB and Kindle. Book excerpt: Microbiome-Based Decontamination of Environmental Pollutants explores the complex interactions of plant-associated microbiomes, providing insights into the pressing challenges of managing environmental resources such as soil, water, and waste. Analysis has shown a formidable potential based in the network interactions between plant microbiota and environmental contaminants. This book presents insights into the potential exploitation of these plant-associated microbial functions. This volume in the Plant and Soil Microbiome series summarizes microbiological aspects of environmental management from the basics to advanced theoretical as well as practical aspects of microbial-based approaches. The physical and chemical changes caused by pollution of an ecosystem can occur rapidly, significantly impacting the functionality of ecosystem services in that environment. Environmental contamination poses and increasingly global challenge through direct and indirect adverse impacts on the climate, soil productivity and the health concerns of human beings. Traditional remediation techniques are not consistently feasible in mitigating environmental contaminants challenges in terms of cost-effectiveness, limited land resources and toxic residual products. The use of plant-associated microbes as part of a network of tools opens a new door to explore an alternative, eco-friendly and economical technology to mitigate the challenges of environmental contamination. Explores the emerging plant microbe interactive nexus for contaminants degradation Presents insights into the production and commercialization of plant-microbiome based enzymes Includes engineered microbes and microbial products application in contaminant management Highlights the latest omics and technologies used in plant–soil microbiome in contaminant management

Water Security: Big Data-Driven Risk Identification, Assessment and Control of Emerging Contaminants

Author : Bin Liang
Publisher : Elsevier
ISBN 13 : 0443141711
Total Pages : 671 pages
Book Rating : 4.4/5 (431 download)

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Book Synopsis Water Security: Big Data-Driven Risk Identification, Assessment and Control of Emerging Contaminants by : Bin Liang

Download or read book Water Security: Big Data-Driven Risk Identification, Assessment and Control of Emerging Contaminants written by Bin Liang and published by Elsevier. This book was released on 2024-06-28 with total page 671 pages. Available in PDF, EPUB and Kindle. Book excerpt: Water Security: Big Data-Driven Risk Identification, Assessment and Control of Emerging Contaminants contains the latest information on big data–driven risk detection and analysis, risk assessment and environmental health effect, intelligent risk control technologies, and global control strategy of emerging contaminants. First, this book highlights advances and challenges throughout the detection of emerging chemical contaminants (e.g., antimicrobials, microplastics) by sensors or mass spectrometry, as well as emerging biological contaminant (e.g., ARGs, pathogens) by a combination of next- and third-generation sequencing technologies in aquatic environment. Second, it discusses in depth the ecological risk assessment and environmental health effects of emerging contaminants. Lastly, it presents the most up-to-date intelligent risk management technologies. This book shares instrumental global strategy and policy analysis on how to control emerging contaminants. Offering interdisciplinary and global perspectives from experts in environmental sciences and engineering, environmental microbiology and microbiome, environmental informatics and bioinformatics, intelligent systems, and knowledge engineering, this book provides an accessible and flexible resource for researchers and upper level students working in these fields. Covers the detection, high-throughput analyses, and environmental behavior of the typical emerging chemical and biological contaminants Focuses on chemical and biological big data driven aquatic ecological risk assessment models and techniques Highlights the intelligent management and control technologies and policies for emerging contaminants in water environments

Genomics, Proteomics and Metabolomics in Nutraceuticals and Functional Foods

Author : Debasis Bagchi
Publisher : John Wiley & Sons
ISBN 13 : 0813821320
Total Pages : 370 pages
Book Rating : 4.8/5 (138 download)

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Book Synopsis Genomics, Proteomics and Metabolomics in Nutraceuticals and Functional Foods by : Debasis Bagchi

Download or read book Genomics, Proteomics and Metabolomics in Nutraceuticals and Functional Foods written by Debasis Bagchi and published by John Wiley & Sons. This book was released on 2010-02-04 with total page 370 pages. Available in PDF, EPUB and Kindle. Book excerpt: The nutraceutical and functional food field is rapidly growing in diverse sectors, including academic, commercial and government. This has brought a corresponding shift in research focus and in public awareness. Understanding the relevance of the scientific principles in determining the safety and effectiveness of functional foods and nutraceuticals is increasingly important. It is becoming increasingly evident that genomic research technologies will be used in the coming years and there is a need to provide resources that will facilitate this growth. This book incorporates the most recent advances in the three major sectors of the field within one volume. Genomics, proteomics, and metobolomics represent three major scientific research areas that contribute to nutraceutical and functional food research for studies of effectiveness and safety.

Mass Spectrometry for Food Analysis

Author : Hector Koolen
Publisher : Springer Nature
ISBN 13 : 1071621076
Total Pages : 326 pages
Book Rating : 4.0/5 (716 download)

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Book Synopsis Mass Spectrometry for Food Analysis by : Hector Koolen

Download or read book Mass Spectrometry for Food Analysis written by Hector Koolen and published by Springer Nature. This book was released on 2022-06-25 with total page 326 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume details protocols on mass spectrometry and associated techniques. Chapters guide readers through micro- and macronutrients analysis, mass spectrometry-related methodologies, direct insertion, matrix-assisted laser desorption ionization (MALDI), gas chromatography (uni- and bi-dimensional), liquid chromatography, plasma mass spectrometry (ICP-MS), and analyses in food samples. Authoritative and cutting-edge, Mass Spectrometry for Food Analysis aims to provide comprehensive and updated state-of-art methodologies and models for food analysis.