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Moving beyond MARCO
The use of imaging systems in protein crystallisation means that the experimental setups no longer require manual inspection to determine the outcome of the trials. However, it leads to the problem of how best to find images which contain useful information about the crystallisation experiments. The...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10038243/ https://www.ncbi.nlm.nih.gov/pubmed/36961775 http://dx.doi.org/10.1371/journal.pone.0283124 |
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author | Rosa, Nicholas Watkins, Christopher J. Newman, Janet |
author_facet | Rosa, Nicholas Watkins, Christopher J. Newman, Janet |
author_sort | Rosa, Nicholas |
collection | PubMed |
description | The use of imaging systems in protein crystallisation means that the experimental setups no longer require manual inspection to determine the outcome of the trials. However, it leads to the problem of how best to find images which contain useful information about the crystallisation experiments. The adoption of a deeplearning approach in 2018 enabled a four-class machine classification system of the images to exceed human accuracy for the first time. Underpinning this was the creation of a labelled training set which came from a consortium of several different laboratories. The MARCO classification model does not have the same accuracy on local data as it does on images from the original test set; this can be somewhat mitigated by retraining the ML model and including local images. We have characterized the image data used in the original MARCO model, and performed extensive experiments to identify training settings most likely to enhance the local performance of a MARCO-dataset based ML classification model. |
format | Online Article Text |
id | pubmed-10038243 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-100382432023-03-25 Moving beyond MARCO Rosa, Nicholas Watkins, Christopher J. Newman, Janet PLoS One Research Article The use of imaging systems in protein crystallisation means that the experimental setups no longer require manual inspection to determine the outcome of the trials. However, it leads to the problem of how best to find images which contain useful information about the crystallisation experiments. The adoption of a deeplearning approach in 2018 enabled a four-class machine classification system of the images to exceed human accuracy for the first time. Underpinning this was the creation of a labelled training set which came from a consortium of several different laboratories. The MARCO classification model does not have the same accuracy on local data as it does on images from the original test set; this can be somewhat mitigated by retraining the ML model and including local images. We have characterized the image data used in the original MARCO model, and performed extensive experiments to identify training settings most likely to enhance the local performance of a MARCO-dataset based ML classification model. Public Library of Science 2023-03-24 /pmc/articles/PMC10038243/ /pubmed/36961775 http://dx.doi.org/10.1371/journal.pone.0283124 Text en © 2023 Rosa 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 Rosa, Nicholas Watkins, Christopher J. Newman, Janet Moving beyond MARCO |
title | Moving beyond MARCO |
title_full | Moving beyond MARCO |
title_fullStr | Moving beyond MARCO |
title_full_unstemmed | Moving beyond MARCO |
title_short | Moving beyond MARCO |
title_sort | moving beyond marco |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10038243/ https://www.ncbi.nlm.nih.gov/pubmed/36961775 http://dx.doi.org/10.1371/journal.pone.0283124 |
work_keys_str_mv | AT rosanicholas movingbeyondmarco AT watkinschristopherj movingbeyondmarco AT newmanjanet movingbeyondmarco |