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Systems Bioinformatics: increasing precision of computational diagnostics and therapeutics through network-based approaches

Systems Bioinformatics is a relatively new approach, which lies in the intersection of systems biology and classical bioinformatics. It focuses on integrating information across different levels using a bottom-up approach as in systems biology with a data-driven top-down approach as in bioinformatic...

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Autores principales: Oulas, Anastasis, Minadakis, George, Zachariou, Margarita, Sokratous, Kleitos, Bourdakou, Marilena M, Spyrou, George M
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6585387/
https://www.ncbi.nlm.nih.gov/pubmed/29186305
http://dx.doi.org/10.1093/bib/bbx151
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author Oulas, Anastasis
Minadakis, George
Zachariou, Margarita
Sokratous, Kleitos
Bourdakou, Marilena M
Spyrou, George M
author_facet Oulas, Anastasis
Minadakis, George
Zachariou, Margarita
Sokratous, Kleitos
Bourdakou, Marilena M
Spyrou, George M
author_sort Oulas, Anastasis
collection PubMed
description Systems Bioinformatics is a relatively new approach, which lies in the intersection of systems biology and classical bioinformatics. It focuses on integrating information across different levels using a bottom-up approach as in systems biology with a data-driven top-down approach as in bioinformatics. The advent of omics technologies has provided the stepping-stone for the emergence of Systems Bioinformatics. These technologies provide a spectrum of information ranging from genomics, transcriptomics and proteomics to epigenomics, pharmacogenomics, metagenomics and metabolomics. Systems Bioinformatics is the framework in which systems approaches are applied to such data, setting the level of resolution as well as the boundary of the system of interest and studying the emerging properties of the system as a whole rather than the sum of the properties derived from the system’s individual components. A key approach in Systems Bioinformatics is the construction of multiple networks representing each level of the omics spectrum and their integration in a layered network that exchanges information within and between layers. Here, we provide evidence on how Systems Bioinformatics enhances computational therapeutics and diagnostics, hence paving the way to precision medicine. The aim of this review is to familiarize the reader with the emerging field of Systems Bioinformatics and to provide a comprehensive overview of its current state-of-the-art methods and technologies. Moreover, we provide examples of success stories and case studies that utilize such methods and tools to significantly advance research in the fields of systems biology and systems medicine.
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spelling pubmed-65853872019-06-25 Systems Bioinformatics: increasing precision of computational diagnostics and therapeutics through network-based approaches Oulas, Anastasis Minadakis, George Zachariou, Margarita Sokratous, Kleitos Bourdakou, Marilena M Spyrou, George M Brief Bioinform Paper Systems Bioinformatics is a relatively new approach, which lies in the intersection of systems biology and classical bioinformatics. It focuses on integrating information across different levels using a bottom-up approach as in systems biology with a data-driven top-down approach as in bioinformatics. The advent of omics technologies has provided the stepping-stone for the emergence of Systems Bioinformatics. These technologies provide a spectrum of information ranging from genomics, transcriptomics and proteomics to epigenomics, pharmacogenomics, metagenomics and metabolomics. Systems Bioinformatics is the framework in which systems approaches are applied to such data, setting the level of resolution as well as the boundary of the system of interest and studying the emerging properties of the system as a whole rather than the sum of the properties derived from the system’s individual components. A key approach in Systems Bioinformatics is the construction of multiple networks representing each level of the omics spectrum and their integration in a layered network that exchanges information within and between layers. Here, we provide evidence on how Systems Bioinformatics enhances computational therapeutics and diagnostics, hence paving the way to precision medicine. The aim of this review is to familiarize the reader with the emerging field of Systems Bioinformatics and to provide a comprehensive overview of its current state-of-the-art methods and technologies. Moreover, we provide examples of success stories and case studies that utilize such methods and tools to significantly advance research in the fields of systems biology and systems medicine. Oxford University Press 2017-11-27 /pmc/articles/PMC6585387/ /pubmed/29186305 http://dx.doi.org/10.1093/bib/bbx151 Text en © The Author 2017. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
spellingShingle Paper
Oulas, Anastasis
Minadakis, George
Zachariou, Margarita
Sokratous, Kleitos
Bourdakou, Marilena M
Spyrou, George M
Systems Bioinformatics: increasing precision of computational diagnostics and therapeutics through network-based approaches
title Systems Bioinformatics: increasing precision of computational diagnostics and therapeutics through network-based approaches
title_full Systems Bioinformatics: increasing precision of computational diagnostics and therapeutics through network-based approaches
title_fullStr Systems Bioinformatics: increasing precision of computational diagnostics and therapeutics through network-based approaches
title_full_unstemmed Systems Bioinformatics: increasing precision of computational diagnostics and therapeutics through network-based approaches
title_short Systems Bioinformatics: increasing precision of computational diagnostics and therapeutics through network-based approaches
title_sort systems bioinformatics: increasing precision of computational diagnostics and therapeutics through network-based approaches
topic Paper
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6585387/
https://www.ncbi.nlm.nih.gov/pubmed/29186305
http://dx.doi.org/10.1093/bib/bbx151
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