Proteomics and Systems Biology
- 1st Edition, Volume 127 - July 23, 2021
- Imprint: Academic Press
- Editors: Rossen Donev, Tatyana Karabencheva-Christova
- Language: English
- Hardback ISBN:9 7 8 - 0 - 3 2 3 - 8 5 3 1 9 - 4
- eBook ISBN:9 7 8 - 0 - 3 2 3 - 8 5 3 2 0 - 0
Proteomics and Systems Biology, Volume 127 in the Advances in Protein Chemistry and Structural Biology series, outlines current proteomic methodologies and discuss the challenges i… Read more
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Request a sales quoteProteomics 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
Specialists in proteomics, computational modelling and experimental biologists working on prediction and characterisation of the dynamic properties of biological systems. Published herein articles would be of scholarly interest also to students in the abovementioned fields
- Cover image
- Title page
- Table of Contents
- Copyright
- Contributors
- Chapter One: Using proteomic and transcriptomic data to assess activation of intracellular molecular pathways
- Abstract
- 1: Molecular pathways
- 2: Quantitative analysis of gene expression
- 3: Quantization of pathway activities
- 4: Applications in life sciences
- 5: Applications in medicine
- 6: Software for PAL calculation
- 7: Concluding remarks
- Acknowledgments
- Chapter Two: Proteomics in systems toxicology
- Abstract
- 1: The proteome as toxicological endpoint
- 2: Proteomics methods and approaches in toxicology
- 3: Applications
- 4: Take-home lessons
- Acknowledgments
- Chapter Three: Posttranslational modifications in systems biology
- Abstract
- 1: Introduction
- 2: Major PTM types
- 3: PTM identification and quantification
- 4: Data analysis strategies
- 5: PTM code
- 6: PTM and PPIs networks
- 7: Advances in PTM studies
- 8: Resources for systems analysis
- 9: PTMs and systems biology
- 10: Challenges and outlook for PTM systems biology
- 11: Conclusion
- Acknowledgments
- Conflict of interest
- Chapter Four: Big data, integrative omics and network biology
- Abstract
- 1: Introduction
- 2: Rise of the omics
- 3: Network biology across regulatory layers and across omics
- 4: Data science in big data era
- 5: Integrated omics
- 6: Ethics of big data sharing and reuse
- 7: Future perspectives, challenges and conclusion
- Acknowledgments
- Conflict of interest
- Chapter Five: Proteome analysis using machine learning approaches and its applications to diseases
- Abstract
- 1: Introduction to proteomics
- 2: Overview of machine learning algorithms
- 3: MS in proteomics
- 4: Case study 1: Classification and biomarker prediction using proteomics data
- 5: Case study 2: Deep learning to large-scale data analysis in mass spectrometry-based proteomics
- 6: Application of deep learning in proteomics
- 7: Conclusion
- Chapter Six: Network-based strategies for protein characterization
- Abstract
- 1: Introduction
- 2: The protein folding problem
- 3: Modeling folding kinetics
- 4: Protein structure representation
- 5: Contact maps and graph Laplacian
- 6: Protein folding state discrimination and Laplacian spectrum
- 7: A case study: Methods for protein 3D-structure reconstruction
- 8: Discussion
- Chapter Seven: Proteomics and systems biology in optic nerve regeneration
- Abstract
- 1: Introduction to nerve regeneration
- 2: Proteomics levels and their integration
- 3: Standardization approaches
- 4: Insight about biological knowledge from proteomics and connectivity with other omics
- 5: Conclusion
- Acknowledgments
- Chapter Eight: Proteomics of pseudoexfoliation materials in the anterior eye segment
- Abstract
- 1: Introduction
- 2: Anterior segment anatomy and aqueous outflow in pseudoexfoliation glaucoma
- 3: Genetic risk factors and proteins
- 4: Origin of ocular anterior segment proteins
- 5: Environmental factors and interplay
- 6: Conclusion
- Acknowledgments
- Chapter Nine: A systems biology approach to COVID-19 progression in population
- Abstract
- 1: Introduction
- 2: An overview of compartmental models of epidemic progression
- 3: Systems biology approach to compartmental modeling of the COVID-19 epidemic
- 4: Parameter analysis and inference
- 5: Analysis of COVID-19 transmission in China
- 6: Conclusions
- Acknowledgment
- Chapter Ten: An integrative analysis to distinguish between emphysema (EML) and alpha-1 antitrypsin deficiency-related emphysema (ADL)—A systems biology approach
- Abstract
- 1: Introduction
- 2: Methods
- 3: Results
- 4: Discussion
- 5: Conclusion
- Acknowledgments
- Conflicts of interest
- Author contributions
- Role of funding source
- Chapter Eleven: A systemic approach to explore the mechanisms of drug resistance and altered signaling cascades in extensively drug-resistant tuberculosis
- Abstract
- 1: Introduction
- 2: Materials and methods
- 3: Results
- 4: Discussion
- 5: Conclusion
- Acknowledgments
- Conflict of interest
- Author contributions
- Role of funding source
- Edition: 1
- Volume: 127
- Published: July 23, 2021
- Imprint: Academic Press
- No. of pages: 380
- Language: English
- Hardback ISBN: 9780323853194
- eBook ISBN: 9780323853200
RD
Rossen Donev
Rossen Donev received his PhD degree in 1999 from the Institute of Molecular Biology, Bulgarian Academy of Sciences. He did postdoctoral training at Imperial Cancer Research Fund, UK (renamed after the merger with Cancer Research Campaign to Cancer Research UK, London Research Institute) and Cardiff University. In 2007 he was awarded a New Investigator Grant Award from the Medical Research Council (UK) to establish himself as an independent Principle Investigator. In 2010 Dr. Donev was appointed Senior Lecturer at Swansea University. In 2016 Dr. Donev joined MicroPharm Ltd (UK) where currently he is Head of Research. He has published more than 60 research papers, chaired scientific meetings and given invited plenary talks. Rossen Donev has consulted on projects related to development of treatments for neurodevelopmental disorders and cancer therapies. He serves as Editor-in-Chief of the Advances in Protein Chemistry and Structural Biology and on editorial board of several other journals. His research interests include signaling pathways involved in neuropsychiatric disorders and tumor escape from the immune system, and development of therapeutic strategies for their treatment. More recently he has focused on development of immunotherapeutics for non-systemic applications.
Affiliations and expertise
Head of Research, MicroPharm Limited, UKTK
Tatyana Karabencheva-Christova
Dr. Tatyana Karabencheva-Christova works at the Department of Applied Sciences, University of Northumbria, UK.
Affiliations and expertise
Department of Chemistry, Michigan Technological University, Houghton, MI, USARead Proteomics and Systems Biology on ScienceDirect