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The automatic parameter-exploration with a machine-learning-like approach: Powering the evolutionary modeling on the origin of life
The origin of life involved complicated evolutionary processes. Computer modeling is a promising way to reveal relevant mechanisms. However, due to the limitation of our knowledge on prebiotic chemistry, it is usually difficult to justify parameter-setting for the modeling. Thus, typically, the stud...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8752021/ https://www.ncbi.nlm.nih.gov/pubmed/34965249 http://dx.doi.org/10.1371/journal.pcbi.1009761 |
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author | Liang, Yuzhen Yu, Chunwu Ma, Wentao |
author_facet | Liang, Yuzhen Yu, Chunwu Ma, Wentao |
author_sort | Liang, Yuzhen |
collection | PubMed |
description | The origin of life involved complicated evolutionary processes. Computer modeling is a promising way to reveal relevant mechanisms. However, due to the limitation of our knowledge on prebiotic chemistry, it is usually difficult to justify parameter-setting for the modeling. Thus, typically, the studies were conducted in a reverse way: the parameter-space was explored to find those parameter values “supporting” a hypothetical scene (that is, leaving the parameter-justification a later job when sufficient knowledge is available). Exploring the parameter-space manually is an arduous job (especially when the modeling becomes complicated) and additionally, difficult to characterize as regular “Methods” in a paper. Here we show that a machine-learning-like approach may be adopted, automatically optimizing the parameters. With this efficient parameter-exploring approach, the evolutionary modeling on the origin of life would become much more powerful. In particular, based on this, it is expected that more near-reality (complex) models could be introduced, and thereby theoretical research would be more tightly associated with experimental investigation in this field–hopefully leading to significant steps forward in respect to our understanding on the origin of life. |
format | Online Article Text |
id | pubmed-8752021 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-87520212022-01-12 The automatic parameter-exploration with a machine-learning-like approach: Powering the evolutionary modeling on the origin of life Liang, Yuzhen Yu, Chunwu Ma, Wentao PLoS Comput Biol Research Article The origin of life involved complicated evolutionary processes. Computer modeling is a promising way to reveal relevant mechanisms. However, due to the limitation of our knowledge on prebiotic chemistry, it is usually difficult to justify parameter-setting for the modeling. Thus, typically, the studies were conducted in a reverse way: the parameter-space was explored to find those parameter values “supporting” a hypothetical scene (that is, leaving the parameter-justification a later job when sufficient knowledge is available). Exploring the parameter-space manually is an arduous job (especially when the modeling becomes complicated) and additionally, difficult to characterize as regular “Methods” in a paper. Here we show that a machine-learning-like approach may be adopted, automatically optimizing the parameters. With this efficient parameter-exploring approach, the evolutionary modeling on the origin of life would become much more powerful. In particular, based on this, it is expected that more near-reality (complex) models could be introduced, and thereby theoretical research would be more tightly associated with experimental investigation in this field–hopefully leading to significant steps forward in respect to our understanding on the origin of life. Public Library of Science 2021-12-29 /pmc/articles/PMC8752021/ /pubmed/34965249 http://dx.doi.org/10.1371/journal.pcbi.1009761 Text en © 2021 Liang et al https://creativecommons.org/licenses/by/4.0/This is an open access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
spellingShingle | Research Article Liang, Yuzhen Yu, Chunwu Ma, Wentao The automatic parameter-exploration with a machine-learning-like approach: Powering the evolutionary modeling on the origin of life |
title | The automatic parameter-exploration with a machine-learning-like approach: Powering the evolutionary modeling on the origin of life |
title_full | The automatic parameter-exploration with a machine-learning-like approach: Powering the evolutionary modeling on the origin of life |
title_fullStr | The automatic parameter-exploration with a machine-learning-like approach: Powering the evolutionary modeling on the origin of life |
title_full_unstemmed | The automatic parameter-exploration with a machine-learning-like approach: Powering the evolutionary modeling on the origin of life |
title_short | The automatic parameter-exploration with a machine-learning-like approach: Powering the evolutionary modeling on the origin of life |
title_sort | automatic parameter-exploration with a machine-learning-like approach: powering the evolutionary modeling on the origin of life |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8752021/ https://www.ncbi.nlm.nih.gov/pubmed/34965249 http://dx.doi.org/10.1371/journal.pcbi.1009761 |
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