Systems Biology Approaches for Host-Pathogen Interaction Analysis
- 1st Edition - February 12, 2024
- Imprint: Academic Press
- Editors: Mohd. Tashfeen Ashraf, Abdul Arif Khan, Fahad M. Aldakheel
- Language: English
- Paperback ISBN:9 7 8 - 0 - 3 2 3 - 9 5 8 9 0 - 5
- eBook ISBN:9 7 8 - 0 - 3 2 3 - 9 5 8 9 1 - 2
Application and utilization of data science approaches has revolutionized scientific research including host–pathogen interaction analyses. Host–pathogen interactions a… Read more
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Request a sales quoteApplication and utilization of data science approaches has revolutionized scientific research including host–pathogen interaction analyses. Host–pathogen interactions are generally considered highly specific interactions, resulting in a variety of consequences. Data science approaches coupled with network biology has taken host–pathogen interaction analysis from specific interaction to a new paradigm of understanding the consequences of these interactions within a biological network. Unfortunately, basic biological researchers are mostly unaware of these advancements. Conversely, data scientists are not familiar with biological aspects of such data.
Systems Biology Approaches for Host–Pathogen Interaction Analyses benefits biological researchers by expanding the scope of their research and utilization of their accumulated data using recent technological advancements. In addition, the book also opens avenues for bioinformatics and computer science researchers to utilize their expertise in biologically meaningful ways.
- Cover approaches to decipher complex multiple host–pathogen interactions
- Gives biological researcher an insight into the utilization of technological advancements in the field of host–pathogen interaction analyses in their work
- Provides a new paradigm of understanding the consequences of host–pathogen interaction in biological systems
Microbiology students and researchers, Biological Data Scientists, Bioinformaticians and Computational Biologists, Pharmaceutical companies dealing with microbes, Libraries of academic institutes dealing with biotechnology, healthcare, data science and bioinformatics
- Cover image
- Title page
- Table of Contents
- Copyright
- Dedication
- List of contributors
- Foreword
- Preface
- Acknowledgments
- Chapter 1. Host-pathogen interactions: a general introduction
- Abstract
- 1.1 Introduction
- 1.2 Methods for prediction of host-pathogen interactions
- 1.3 Online repositories for host-pathogen interactions
- 1.4 Conclusion
- Acknowledgment
- References
- Chapter 2. Host-pathogen interactions: databases and approaches for data generation
- Abstract
- 2.1 Introduction
- 2.2 Databases for host-pathogen interactions
- 2.3 Bioinformatic methods to discover HPI networking
- 2.4 Microscopic imaging techniques as stage of the art
- 2.5 RNA-Seq profiling: tool for determining the HPI network
- 2.6 Artificial intelligence-driven analysis for HPIs
- 2.7 Challenges and opportunities
- 2.8 Conclusion
- References
- Chapter 3. Generation of host-pathogen interaction data: an overview of recent technological advancements
- Abstract
- 3.1 Introduction
- 3.2 Introduction of bioinformatics in light of NGS
- 3.3 A short glimpse of the “integration of omics”
- 3.4 Why is multiomics study preferred over single omics?
- 3.5 Advancements in the generation of host-pathogen interaction data
- 3.6 Bioinformatics resources and web-based databases for host-pathogen interactions
- 3.7 Challenges in the generation of host-pathogen interaction data
- 3.8 Discussion and future prospects
- 3.9 Conclusion
- References
- Chapter 4. Molecular omics: a promising systems biology approach to unravel host-pathogen interactions
- Abstract
- 4.1 Introduction
- 4.2 Genomics approaches
- 4.3 Transcriptomics
- 4.4 Proteomics of host-pathogen interactions
- 4.5 Metabolomics approaches
- 4.6 Future perspectives
- References
- Chapter 5. Computational methods for detection of host-pathogen interactions
- Abstract
- 5.1 Introduction
- 5.2 Computational techniques for prediction of host-pathogen interactions
- 5.3 Case studies
- 5.4 Discussion
- References
- Further reading
- Chapter 6. Biological interaction networks and their application for microbial pathogenesis
- Abstract
- 6.1 Introduction: biological networks
- 6.2 Tools for construction and analysis of biological networks
- 6.3 Functional annotation and biological characterization of host and microbial proteins
- 6.4 Ontology and pathway analysis to understand microbial pathogenesis
- 6.5 Case study: host-pathogen interaction networks for CVD pathways in microbial diseases
- 6.6 Conclusion
- References
- Chapter 7. Dual transcriptomics data and detection of host-pathogen interactions
- Abstract
- 7.1 Introduction
- 7.2 Unraveling host-pathogen interactions via genome-wide dual RNA-Seq
- 7.3 Best practices in dual RNA-Seq: from experimental design to a step-wise guide to performing bioinformatic analysis
- 7.4 Challenges of dual RNA-Seq experiments and data analysis
- 7.5 Dual RNA-Seq in the era of third-generation sequencing
- 7.6 Dissecting the role of noncoding RNA in host-pathogen interactions using dual transcriptomic data
- 7.7 Future perspectives
- Acknowledgments
- References
- Chapter 8. Functional overrepresentation analysis and their application in microbial pathogenesis
- Abstract
- 8.1 Introduction
- 8.2 Analysis via different databases
- 8.3 Application of statistical databases in microbial pathogenesis
- References
- Chapter 9. Advancements in systems biology-based analysis of microbial pathogenesis
- Abstract
- 9.1 Introduction of microbial pathogenesis
- 9.2 Systems biology of microbial pathogenesis
- 9.3 Systems biology techniques to study microbial pathogenesis
- 9.4 Conclusion
- References
- Chapter 10. Host-pathogen interactions with special reference to microbiota analysis and integration of systems biology approaches
- Abstract
- 10.1 Introduction
- 10.2 Methods for identifying the microbiota: a brief account
- 10.3 Factors to be considered before identifying microbiota
- 10.4 Role of next-generation sequencing technologies for microbial community analysis in understanding host-pathogen interactions
- 10.5 Microbial community analysis for understanding the antibiotic resistance phenomenon through 16S sequencing
- 10.6 Gut microbiota analysis in COVID-19 through 16S metagenomic sequencing
- 10.7 Challenges and advantages of using systems biology in microbiota analysis
- 10.8 Pathogen-host interactions in bioinformatics
- 10.9 Systems biology and omics data
- 10.10 PHI and systems biology
- 10.11 Conclusion
- Acknowledgment
- References
- Chapter 11. Role of noncoding RNAs in host-pathogen interactions: a systems biology approach
- Abstract
- 11.1 Introduction
- 11.2 Exploring different forms of noncoding RNAs
- 11.3 Comprehending the role of ncRNAs in pathogen-host interplay
- 11.4 Why is it important to study the function of ncRNAs?
- 11.5 RNA systems biology
- 11.6 Computational resources for identifying ncRNAs in host pathogenesis
- 11.7 How to explore the significance of miRNAs in infection development?
- 11.8 Why network analysis is important for studying ncRNAs?
- References
- Chapter 12. Systems biology in food industry: applications in food production, engineering, and pathogen detection
- Abstract
- 12.1 Introduction
- 12.2 Networks used in systems biology
- 12.3 Systems biology benefits for food production
- 12.4 Systems biology in foodborne pathogen detection
- 12.5 Future scope
- 12.6 Conclusion
- References
- Author Index
- A
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- Subject Index
- A
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- Edition: 1
- Published: February 12, 2024
- Imprint: Academic Press
- No. of pages: 316
- Language: English
- Paperback ISBN: 9780323958905
- eBook ISBN: 9780323958912
MA
Mohd. Tashfeen Ashraf
Mohd. Tashfeen Ashraf is currently working as Assistant Professor in the School of Biotechnology, Gautam Buddha University (GBU). After securing his Master’s degree in biochemistry, he earned his Doctorate in Biotechnology from Aligarh Muslim University, India, during which he characterized the folding intermediates of various proteins. His research area involves the study of folding behavior of proteins, their structure–function relationship, and protein–protein interactions under normal and disease conditions.
Affiliations and expertise
Assistant Professor in School of Biotechnology, Gautam Buddha UniversityAK
Abdul Arif Khan
Abdul Arif Khan is a Microbiologist by training with an interest in the field of host-pathogen interactions, systems biology, and cancer biology. He has received several awards and Fellowships from national and international organizations, including the Royal Society for Public Health and the Federation of European Microbiological Societies. He is a recipient of several grants for his research on artificial Intelligence and host-pathogen interactions. He is credited with several papers and books related to systems biology and host-pathogen interaction analysis.
Affiliations and expertise
College of Pharmacy, King Saud University, Saudi ArabiaFA
Fahad M. Aldakheel
Fahad M. Aldakheel is an Associate Professor of Clinical Immunology at the Department of Clinical Laboratory Sciences, College of Applied Medical Sciences at King Saud University in Riyadh, Saudi Arabia. He obtained his PhD from the University of Melbourne, Australia. He is a board member of the Saudi Society for Clinical Laboratory Sciences. He has several scientific publications in national and international journals, and is also working as a member and a reviewer in several scientific organizations.
Affiliations and expertise
Department of Clinical Laboratory Sciences, College of Applied Medical Sciences, King Saud University, Riyadh, KSARead Systems Biology Approaches for Host-Pathogen Interaction Analysis on ScienceDirect