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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...

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Detalles Bibliográficos
Autores principales: Rosa, Nicholas, Watkins, Christopher J., Newman, Janet
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2023
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.
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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
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