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
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
Author: Spyros Petrakis
language: en
Publisher: Frontiers Media SA
Release Date: 2016-10-19
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
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