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The potential of a data centred approach & knowledge graph data representation in chemical safety and drug design

Big Data pervades nearly all areas of life sciences, yet the analysis of large integrated data sets remains a major challenge. Moreover, the field of life sciences is highly fragmented and, consequently, so is its data, knowledge, and standards. This, in turn, makes integrated data analysis and know...

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Autores principales: Pavel, Alisa, Saarimäki, Laura A., Möbus, Lena, Federico, Antonio, Serra, Angela, Greco, Dario
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Research Network of Computational and Structural Biotechnology 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9464643/
https://www.ncbi.nlm.nih.gov/pubmed/36147662
http://dx.doi.org/10.1016/j.csbj.2022.08.061
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author Pavel, Alisa
Saarimäki, Laura A.
Möbus, Lena
Federico, Antonio
Serra, Angela
Greco, Dario
author_facet Pavel, Alisa
Saarimäki, Laura A.
Möbus, Lena
Federico, Antonio
Serra, Angela
Greco, Dario
author_sort Pavel, Alisa
collection PubMed
description Big Data pervades nearly all areas of life sciences, yet the analysis of large integrated data sets remains a major challenge. Moreover, the field of life sciences is highly fragmented and, consequently, so is its data, knowledge, and standards. This, in turn, makes integrated data analysis and knowledge gathering across sub-fields a demanding task. At the same time, the integration of various research angles and data types is crucial for modelling the complexity of organisms and biological processes in a holistic manner. This is especially valid in the context of drug development and chemical safety assessment where computational methods can provide solutions for the urgent need of fast, effective, and sustainable approaches. At the same time, such computational methods require the development of methodologies suitable for an integrated and data centred Big Data view. Here we discuss Knowledge Graphs (KG) as a solution to a data centred analysis approach for drug and chemical development and safety assessment. KGs are knowledge bases, data analysis engines, and knowledge discovery systems all in one, allowing them to be used from simple data retrieval, over meta-analysis to complex predictive and knowledge discovery systems. Therefore, KGs have immense potential to advance the data centred approach, the re-usability, and informativity of data. Furthermore, they can improve the power of analysis, and the complexity of modelled processes, all while providing knowledge in a natively human understandable network data model.
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spelling pubmed-94646432022-09-21 The potential of a data centred approach & knowledge graph data representation in chemical safety and drug design Pavel, Alisa Saarimäki, Laura A. Möbus, Lena Federico, Antonio Serra, Angela Greco, Dario Comput Struct Biotechnol J Review Article Big Data pervades nearly all areas of life sciences, yet the analysis of large integrated data sets remains a major challenge. Moreover, the field of life sciences is highly fragmented and, consequently, so is its data, knowledge, and standards. This, in turn, makes integrated data analysis and knowledge gathering across sub-fields a demanding task. At the same time, the integration of various research angles and data types is crucial for modelling the complexity of organisms and biological processes in a holistic manner. This is especially valid in the context of drug development and chemical safety assessment where computational methods can provide solutions for the urgent need of fast, effective, and sustainable approaches. At the same time, such computational methods require the development of methodologies suitable for an integrated and data centred Big Data view. Here we discuss Knowledge Graphs (KG) as a solution to a data centred analysis approach for drug and chemical development and safety assessment. KGs are knowledge bases, data analysis engines, and knowledge discovery systems all in one, allowing them to be used from simple data retrieval, over meta-analysis to complex predictive and knowledge discovery systems. Therefore, KGs have immense potential to advance the data centred approach, the re-usability, and informativity of data. Furthermore, they can improve the power of analysis, and the complexity of modelled processes, all while providing knowledge in a natively human understandable network data model. Research Network of Computational and Structural Biotechnology 2022-09-05 /pmc/articles/PMC9464643/ /pubmed/36147662 http://dx.doi.org/10.1016/j.csbj.2022.08.061 Text en © 2022 The Author(s) https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
spellingShingle Review Article
Pavel, Alisa
Saarimäki, Laura A.
Möbus, Lena
Federico, Antonio
Serra, Angela
Greco, Dario
The potential of a data centred approach & knowledge graph data representation in chemical safety and drug design
title The potential of a data centred approach & knowledge graph data representation in chemical safety and drug design
title_full The potential of a data centred approach & knowledge graph data representation in chemical safety and drug design
title_fullStr The potential of a data centred approach & knowledge graph data representation in chemical safety and drug design
title_full_unstemmed The potential of a data centred approach & knowledge graph data representation in chemical safety and drug design
title_short The potential of a data centred approach & knowledge graph data representation in chemical safety and drug design
title_sort potential of a data centred approach & knowledge graph data representation in chemical safety and drug design
topic Review Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9464643/
https://www.ncbi.nlm.nih.gov/pubmed/36147662
http://dx.doi.org/10.1016/j.csbj.2022.08.061
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