Boolean modelling as a logic-based dynamic approach in systems medicine
Molecular mechanisms of health and disease are often represented as systems biology diagrams, and the coverage of such representation constantly increases. These static diagrams can be transformed into dynamic models, allowing for in silico simulations and predictions. Boolean modelling is an approa...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2022-01-01
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| Series: | Computational and Structural Biotechnology Journal |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2001037022002495 |
| _version_ | 1797978256141451264 |
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| author | Ahmed Abdelmonem Hemedan Anna Niarakis Reinhard Schneider Marek Ostaszewski |
| author_facet | Ahmed Abdelmonem Hemedan Anna Niarakis Reinhard Schneider Marek Ostaszewski |
| author_sort | Ahmed Abdelmonem Hemedan |
| collection | DOAJ |
| description | Molecular mechanisms of health and disease are often represented as systems biology diagrams, and the coverage of such representation constantly increases. These static diagrams can be transformed into dynamic models, allowing for in silico simulations and predictions. Boolean modelling is an approach based on an abstract representation of the system. It emphasises the qualitative modelling of biological systems in which each biomolecule can take two possible values: zero for absent or inactive, one for present or active. Because of this approximation, Boolean modelling is applicable to large diagrams, allowing to capture their dynamic properties. We review Boolean models of disease mechanisms and compare a range of methods and tools used for analysis processes. We explain the methodology of Boolean analysis focusing on its application in disease modelling. Finally, we discuss its practical application in analysing signal transduction and gene regulatory pathways in health and disease. |
| first_indexed | 2024-04-11T05:20:05Z |
| format | Article |
| id | doaj.art-f158b69a337b4e80926f62e9eb0acd97 |
| institution | Directory Open Access Journal |
| issn | 2001-0370 |
| language | English |
| last_indexed | 2024-04-11T05:20:05Z |
| publishDate | 2022-01-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Computational and Structural Biotechnology Journal |
| spelling | doaj.art-f158b69a337b4e80926f62e9eb0acd972022-12-24T04:53:04ZengElsevierComputational and Structural Biotechnology Journal2001-03702022-01-012031613172Boolean modelling as a logic-based dynamic approach in systems medicineAhmed Abdelmonem Hemedan0Anna Niarakis1Reinhard Schneider2Marek Ostaszewski3Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, LuxembourgUniversité Paris-Saclay, Laboratoire Européen de Recherche pour la Polyarthrite rhumatoïde – Genhotel, Univ Evry, Evry, France; Lifeware Group, Inria, Saclay-île de France, 91120 Palaiseau, FranceLuxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, LuxembourgLuxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg; Corresponding author at: Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 6 Avenue du Swing, L-4367 Belvaux, Luxembourg.Molecular mechanisms of health and disease are often represented as systems biology diagrams, and the coverage of such representation constantly increases. These static diagrams can be transformed into dynamic models, allowing for in silico simulations and predictions. Boolean modelling is an approach based on an abstract representation of the system. It emphasises the qualitative modelling of biological systems in which each biomolecule can take two possible values: zero for absent or inactive, one for present or active. Because of this approximation, Boolean modelling is applicable to large diagrams, allowing to capture their dynamic properties. We review Boolean models of disease mechanisms and compare a range of methods and tools used for analysis processes. We explain the methodology of Boolean analysis focusing on its application in disease modelling. Finally, we discuss its practical application in analysing signal transduction and gene regulatory pathways in health and disease.http://www.sciencedirect.com/science/article/pii/S2001037022002495Logical modellingBoolean networksModelling formatsSystems Biology standards |
| spellingShingle | Ahmed Abdelmonem Hemedan Anna Niarakis Reinhard Schneider Marek Ostaszewski Boolean modelling as a logic-based dynamic approach in systems medicine Computational and Structural Biotechnology Journal Logical modelling Boolean networks Modelling formats Systems Biology standards |
| title | Boolean modelling as a logic-based dynamic approach in systems medicine |
| title_full | Boolean modelling as a logic-based dynamic approach in systems medicine |
| title_fullStr | Boolean modelling as a logic-based dynamic approach in systems medicine |
| title_full_unstemmed | Boolean modelling as a logic-based dynamic approach in systems medicine |
| title_short | Boolean modelling as a logic-based dynamic approach in systems medicine |
| title_sort | boolean modelling as a logic based dynamic approach in systems medicine |
| topic | Logical modelling Boolean networks Modelling formats Systems Biology standards |
| url | http://www.sciencedirect.com/science/article/pii/S2001037022002495 |
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