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Feature importance network reveals novel functional relationships between biological features in Arabidopsis thaliana
Understanding how the different cellular components are working together to form a living cell requires multidisciplinary approaches combining molecular and computational biology. Machine learning shows great potential in life sciences, as it can find novel relationships between biological features....
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9539877/ https://www.ncbi.nlm.nih.gov/pubmed/36212273 http://dx.doi.org/10.3389/fpls.2022.944992 |
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author | Ng, Jonathan Wei Xiong Chua, Swee Kwang Mutwil, Marek |
author_facet | Ng, Jonathan Wei Xiong Chua, Swee Kwang Mutwil, Marek |
author_sort | Ng, Jonathan Wei Xiong |
collection | PubMed |
description | Understanding how the different cellular components are working together to form a living cell requires multidisciplinary approaches combining molecular and computational biology. Machine learning shows great potential in life sciences, as it can find novel relationships between biological features. Here, we constructed a dataset of 11,801 gene features for 31,522 Arabidopsis thaliana genes and developed a machine learning workflow to identify linked features. The detected linked features are visualised as a Feature Important Network (FIN), which can be mined to reveal a variety of novel biological insights pertaining to gene function. We demonstrate how FIN can be used to generate novel insights into gene function. To make this network easily accessible to the scientific community, we present the FINder database, available at finder.plant.tools. |
format | Online Article Text |
id | pubmed-9539877 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-95398772022-10-08 Feature importance network reveals novel functional relationships between biological features in Arabidopsis thaliana Ng, Jonathan Wei Xiong Chua, Swee Kwang Mutwil, Marek Front Plant Sci Plant Science Understanding how the different cellular components are working together to form a living cell requires multidisciplinary approaches combining molecular and computational biology. Machine learning shows great potential in life sciences, as it can find novel relationships between biological features. Here, we constructed a dataset of 11,801 gene features for 31,522 Arabidopsis thaliana genes and developed a machine learning workflow to identify linked features. The detected linked features are visualised as a Feature Important Network (FIN), which can be mined to reveal a variety of novel biological insights pertaining to gene function. We demonstrate how FIN can be used to generate novel insights into gene function. To make this network easily accessible to the scientific community, we present the FINder database, available at finder.plant.tools. Frontiers Media S.A. 2022-09-23 /pmc/articles/PMC9539877/ /pubmed/36212273 http://dx.doi.org/10.3389/fpls.2022.944992 Text en Copyright © 2022 Ng, Chua and Mutwil. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Plant Science Ng, Jonathan Wei Xiong Chua, Swee Kwang Mutwil, Marek Feature importance network reveals novel functional relationships between biological features in Arabidopsis thaliana |
title | Feature importance network reveals novel functional relationships between biological features in Arabidopsis thaliana |
title_full | Feature importance network reveals novel functional relationships between biological features in Arabidopsis thaliana |
title_fullStr | Feature importance network reveals novel functional relationships between biological features in Arabidopsis thaliana |
title_full_unstemmed | Feature importance network reveals novel functional relationships between biological features in Arabidopsis thaliana |
title_short | Feature importance network reveals novel functional relationships between biological features in Arabidopsis thaliana |
title_sort | feature importance network reveals novel functional relationships between biological features in arabidopsis thaliana |
topic | Plant Science |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9539877/ https://www.ncbi.nlm.nih.gov/pubmed/36212273 http://dx.doi.org/10.3389/fpls.2022.944992 |
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