Computational Approaches In Molecular Interaction Analysis Predicting Protein Complexes Host Pathogen Interactions And Protein Function From Interactome Data
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Computational Approaches In Molecular Interaction Analysis Predicting Protein Complexes Host Pathogen Interactions And Protein Function From Interactome Data
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Author : Limsoon Wong
language : en
Publisher: World Scientific
Release Date : 2025-02-18
Computational Approaches In Molecular Interaction Analysis Predicting Protein Complexes Host Pathogen Interactions And Protein Function From Interactome Data written by Limsoon Wong and has been published by World Scientific this book supported file pdf, txt, epub, kindle and other format this book has been release on 2025-02-18 with Science categories.
This book presents a curated collection of research articles from the Journal of Bioinformatics and Computational Biology, highlighting advances in protein-protein interaction-based computational methods for predicting protein complexes, host-pathogen interactions (HPIs), and protein functions. In Part I, it addresses the dynamic challenges of protein complex prediction using innovative techniques like GECA and IPC-RPIN, which integrate network topology, gene expression, and GO annotations to improve accuracy, especially for small complexes. Part II focuses on HPIs, reviewing computational approaches, predictive models, and tools that enhance understanding of infectious diseases, with a particular emphasis on machine learning applications. Part III delves into protein function prediction, employing PPI networks, multi-label methods, and iterative models that account for dynamic interactions. Collectively, these studies provide a comprehensive resource for advancing computational biology and understanding cellular and disease mechanisms.
Protein Interaction Networks In Health And Disease
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Author : Spyros Petrakis
language : en
Publisher: Frontiers Media SA
Release Date : 2016-10-19
Protein Interaction Networks In Health And Disease written by Spyros Petrakis and has been published by Frontiers Media SA this book supported file pdf, txt, epub, kindle and other format this book has been release on 2016-10-19 with Genetics categories.
The identification and mapping of protein-protein interactions (PPIs) is a major goal in systems biology. Experimental data are currently produced in large scale using a variety of high-throughput assays in yeast or mammalian systems. Analysis of these data using computational tools leads to the construction of large protein interaction networks, which help researchers identify novel protein functions. However, our current view of protein interaction networks is still limited and there is an active field of research trying to further develop this concept to include important processes: the topology of interactions and their changes in real time, the effects of competition for binding to the same protein region, PPI variation due to alternative splicing or post-translational modifications, etc. In particular, a clinically relevant topic for development of the concept of protein interactions networks is the consideration of mutant isoforms, which may be responsible for a pathological condition. Mutations in proteins may result in loss of normal interactions and appearance of novel abnormal interactions that may affect a protein’s function and biological cycle. This Research Topic presents novel findings and recent achievements in the field of protein interaction networks with a focus on disease. Authors describe methods for the identification and quantification of PPIs, the annotation and analysis of networks, considering PPIs and protein complexes formed by mutant proteins associated with pathological conditions or genetic diseases.
Encyclopedia Of Bioinformatics And Computational Biology
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Author :
language : en
Publisher: Elsevier
Release Date : 2018-08-21
Encyclopedia Of Bioinformatics And Computational Biology written by and has been published by Elsevier this book supported file pdf, txt, epub, kindle and other format this book has been release on 2018-08-21 with Medical categories.
Encyclopedia of Bioinformatics and Computational Biology: ABC of Bioinformatics, Three Volume Set combines elements of computer science, information technology, mathematics, statistics and biotechnology, providing the methodology and in silico solutions to mine biological data and processes. The book covers Theory, Topics and Applications, with a special focus on Integrative –omics and Systems Biology. The theoretical, methodological underpinnings of BCB, including phylogeny are covered, as are more current areas of focus, such as translational bioinformatics, cheminformatics, and environmental informatics. Finally, Applications provide guidance for commonly asked questions. This major reference work spans basic and cutting-edge methodologies authored by leaders in the field, providing an invaluable resource for students, scientists, professionals in research institutes, and a broad swath of researchers in biotechnology and the biomedical and pharmaceutical industries. Brings together information from computer science, information technology, mathematics, statistics and biotechnology Written and reviewed by leading experts in the field, providing a unique and authoritative resource Focuses on the main theoretical and methodological concepts before expanding on specific topics and applications Includes interactive images, multimedia tools and crosslinking to further resources and databases
Systems Medicine
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Author :
language : en
Publisher: Academic Press
Release Date : 2020-08-24
Systems Medicine written by and has been published by Academic Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2020-08-24 with Science categories.
Technological advances in generated molecular and cell biological data are transforming biomedical research. Sequencing, multi-omics and imaging technologies are likely to have deep impact on the future of medical practice. In parallel to technological developments, methodologies to gather, integrate, visualize and analyze heterogeneous and large-scale data sets are needed to develop new approaches for diagnosis, prognosis and therapy. Systems Medicine: Integrative, Qualitative and Computational Approaches is an innovative, interdisciplinary and integrative approach that extends the concept of systems biology and the unprecedented insights that computational methods and mathematical modeling offer of the interactions and network behavior of complex biological systems, to novel clinically relevant applications for the design of more successful prognostic, diagnostic and therapeutic approaches. This 3 volume work features 132 entries from renowned experts in the fields and covers the tools, methods, algorithms and data analysis workflows used for integrating and analyzing multi-dimensional data routinely generated in clinical settings with the aim of providing medical practitioners with robust clinical decision support systems. Importantly the work delves into the applications of systems medicine in areas such as tumor systems biology, metabolic and cardiovascular diseases as well as immunology and infectious diseases amongst others. This is a fundamental resource for biomedical students and researchers as well as medical practitioners who need to need to adopt advances in computational tools and methods into the clinical practice. Encyclopedic coverage: ‘one-stop’ resource for access to information written by world-leading scholars in the field of Systems Biology and Systems Medicine, with easy cross-referencing of related articles to promote understanding and further research Authoritative: the whole work is authored and edited by recognized experts in the field, with a range of different expertise, ensuring a high quality standard Digitally innovative: Hyperlinked references and further readings, cross-references and diagrams/images will allow readers to easily navigate a wealth of information
Systems Biology Approaches For Host Pathogen Interaction Analysis
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Author : Mohd. Tashfeen Ashraf
language : en
Publisher: Elsevier
Release Date : 2024-02-16
Systems Biology Approaches For Host Pathogen Interaction Analysis written by Mohd. Tashfeen Ashraf and has been published by Elsevier this book supported file pdf, txt, epub, kindle and other format this book has been release on 2024-02-16 with Science categories.
System Biology Approaches for Microbial Pathogenesis Interaction Analysis aids biological researchers to expand their research scope using piled up data generated through recent technological advancement. In addition, it also opens avenues for bioinformatics and computer science researchers to utilize their expertise in biological meaningful ways. It also covers network biology approaches to decipher complex multiple host-pathogen interactions in addition to giving valuable coverage of artificial intelligence. The host-pathogen interactions are generally considered as highly specific interactions leading to a variety of consequences. The utilization of data science approaches has revolutionized scientific research including host-pathogen interaction analyses. Data science approaches coupled with network biology has taken host-pathogen interaction analysis from specific interaction to a new paradigm of understanding consequences of these interaction in the biological network. Unfortunately, basic biological researchers are mostly unaware of these advancements. In contrast, data scientists are not familiar with biological aspects of such data. System Biology Approaches for Microbial Pathogenesis Interaction Analysis will bridge these gaps through a new paradigm of understanding consequences of interaction in biological networks. - 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
Genetic Improvement Of Triticeae Crops Based On High Throughput Phenotyping Molecular Design For Yield Resistance And Tolerance
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Author : Xiaoli Fan
language : en
Publisher: Frontiers Media SA
Release Date : 2023-04-03
Genetic Improvement Of Triticeae Crops Based On High Throughput Phenotyping Molecular Design For Yield Resistance And Tolerance written by Xiaoli Fan and has been published by Frontiers Media SA this book supported file pdf, txt, epub, kindle and other format this book has been release on 2023-04-03 with Science categories.
Novel Approaches In Microbiome Analyses And Data Visualization
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Author : Jessica Galloway-Peña
language : en
Publisher: Frontiers Media SA
Release Date : 2019-02-06
Novel Approaches In Microbiome Analyses And Data Visualization written by Jessica Galloway-Peña and has been published by Frontiers Media SA this book supported file pdf, txt, epub, kindle and other format this book has been release on 2019-02-06 with categories.
High-throughput sequencing technologies are widely used to study microbial ecology across species and habitats in order to understand the impacts of microbial communities on host health, metabolism, and the environment. Due to the dynamic nature of microbial communities, longitudinal microbiome analyses play an essential role in these types of investigations. Key questions in microbiome studies aim at identifying specific microbial taxa, enterotypes, genes, or metabolites associated with specific outcomes, as well as potential factors that influence microbial communities. However, the characteristics of microbiome data, such as sparsity and skewedness, combined with the nature of data collection, reflected often as uneven sampling or missing data, make commonly employed statistical approaches to handle repeated measures in longitudinal studies inadequate. Therefore, many researchers have begun to investigate methods that could improve incorporating these features when studying clinical, host, metabolic, or environmental associations with longitudinal microbiome data. In addition to the inferential aspect, it is also becoming apparent that visualization of high dimensional data in a way which is both intelligible and comprehensive is another difficult challenge that microbiome researchers face. Visualization is crucial in both the analysis and understanding of metagenomic data. Researchers must create clear graphic representations that give biological insight without being overly complicated. Thus, this Research Topic seeks to both review and provide novels approaches that are being developed to integrate microbiome data and complex metadata into meaningful mathematical, statistical and computational models. We believe this topic is fundamental to understanding the importance of microbial communities and provides a useful reference for other investigators approaching the field.
Systems Biology Ii
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Author : Jan Barciszewski
language : en
Publisher: Springer Nature
Release Date : 2024-10-31
Systems Biology Ii written by Jan Barciszewski and has been published by Springer Nature this book supported file pdf, txt, epub, kindle and other format this book has been release on 2024-10-31 with Science categories.
Modern biology is moving away from reductionist approaches towards holistic studies that encompass whole genomes, transcriptomes, proteomes, and metabolomes. Systems biology is an approach to studying complex biological systems by looking at many biomolecules in a comprehensive way. The aim is to gain a thorough understanding of the biological functions of different classes of molecules and their interactions. Systems Biology II is an up-to-date and comprehensive guide to the latest developments in systems biology, with a particular focus on RNA-based technologies. This book is the second volume in the RNA Technologies series dedicated to this topic. It presents cutting-edge approaches and tools for modelling and analyzing complex biological systems at different levels, from molecular interactions to cellular networks and beyond. With contributions from leading experts in the field, the book covers a wide range of topics, including gene regulatory networks, epigenetics, synthetic biology, omics data analysis, network inference, and more. It explores applications in various areas of the life sciences and biomedicine, such as vaccine development, cancer research, transplantation research and pathogenic processes. This volume is an essential resource for scientists and students working in systems biology, bioinformatics, synthetic biology, and related fields, as well as anyone interested in the latest advances in RNA technologies and their applications in biology and medicine.
Protein Protein Interaction Regulators
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Author : Siddhartha Roy
language : en
Publisher: Royal Society of Chemistry
Release Date : 2020-12-14
Protein Protein Interaction Regulators written by Siddhartha Roy and has been published by Royal Society of Chemistry this book supported file pdf, txt, epub, kindle and other format this book has been release on 2020-12-14 with Science categories.
New genomic information has revealed the crucial role that protein–protein interactions (PPIs) play in regulating numerous cellular functions. Aberrant forms of these interactions are common in numerous diseases and thus PPIs have emerged as a vast class of critical drug targets. Despite the importance of PPIs in biology, it has been extremely challenging to convert targets into therapeutics and targeting PPIs had long been considered a very difficult task. However, over the past decade the field has advanced with increasing growth in the number of successful PPI regulators. Protein–Protein Interaction Regulators surveys the latest advances in the structural understanding of PPIs as well as recent developments in modulator discovery.
Encyclopedia Of Cell Biology
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Author :
language : en
Publisher: Academic Press
Release Date : 2015-08-07
Encyclopedia Of Cell Biology written by and has been published by Academic Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2015-08-07 with Science categories.
The Encyclopedia of Cell Biology, Four Volume Set offers a broad overview of cell biology, offering reputable, foundational content for researchers and students across the biological and medical sciences. This important work includes 285 articles from domain experts covering every aspect of cell biology, with fully annotated figures, abundant illustrations, videos, and references for further reading. Each entry is built with a layered approach to the content, providing basic information for those new to the area and more detailed material for the more experienced researcher. With authored contributions by experts in the field, the Encyclopedia of Cell Biology provides a fully cross-referenced, one-stop resource for students, researchers, and teaching faculty across the biological and medical sciences. Fully annotated color images and videos for full comprehension of concepts, with layered content for readers from different levels of experience Includes information on cytokinesis, cell biology, cell mechanics, cytoskeleton dynamics, stem cells, prokaryotic cell biology, RNA biology, aging, cell growth, cell Injury, and more In-depth linking to Academic Press/Elsevier content and additional links to outside websites and resources for further reading A one-stop resource for students, researchers, and teaching faculty across the biological and medical sciences