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Machine learning denoising of high-resolution X-ray nanotomography data
High-resolution X-ray nanotomography is a quantitative tool for investigating specimens from a wide range of research areas. However, the quality of the reconstructed tomogram is often obscured by noise and therefore not suitable for automatic segmentation. Filtering methods are often required for...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
International Union of Crystallography
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8733986/ https://www.ncbi.nlm.nih.gov/pubmed/34985440 http://dx.doi.org/10.1107/S1600577521011139 |
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author | Flenner, Silja Bruns, Stefan Longo, Elena Parnell, Andrew J. Stockhausen, Kilian E. Müller, Martin Greving, Imke |
author_facet | Flenner, Silja Bruns, Stefan Longo, Elena Parnell, Andrew J. Stockhausen, Kilian E. Müller, Martin Greving, Imke |
author_sort | Flenner, Silja |
collection | PubMed |
description | High-resolution X-ray nanotomography is a quantitative tool for investigating specimens from a wide range of research areas. However, the quality of the reconstructed tomogram is often obscured by noise and therefore not suitable for automatic segmentation. Filtering methods are often required for a detailed quantitative analysis. However, most filters induce blurring in the reconstructed tomograms. Here, machine learning (ML) techniques offer a powerful alternative to conventional filtering methods. In this article, we verify that a self-supervised denoising ML technique can be used in a very efficient way for eliminating noise from nanotomography data. The technique presented is applied to high-resolution nanotomography data and compared to conventional filters, such as a median filter and a nonlocal means filter, optimized for tomographic data sets. The ML approach proves to be a very powerful tool that outperforms conventional filters by eliminating noise without blurring relevant structural features, thus enabling efficient quantitative analysis in different scientific fields. |
format | Online Article Text |
id | pubmed-8733986 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | International Union of Crystallography |
record_format | MEDLINE/PubMed |
spelling | pubmed-87339862022-01-19 Machine learning denoising of high-resolution X-ray nanotomography data Flenner, Silja Bruns, Stefan Longo, Elena Parnell, Andrew J. Stockhausen, Kilian E. Müller, Martin Greving, Imke J Synchrotron Radiat Research Papers High-resolution X-ray nanotomography is a quantitative tool for investigating specimens from a wide range of research areas. However, the quality of the reconstructed tomogram is often obscured by noise and therefore not suitable for automatic segmentation. Filtering methods are often required for a detailed quantitative analysis. However, most filters induce blurring in the reconstructed tomograms. Here, machine learning (ML) techniques offer a powerful alternative to conventional filtering methods. In this article, we verify that a self-supervised denoising ML technique can be used in a very efficient way for eliminating noise from nanotomography data. The technique presented is applied to high-resolution nanotomography data and compared to conventional filters, such as a median filter and a nonlocal means filter, optimized for tomographic data sets. The ML approach proves to be a very powerful tool that outperforms conventional filters by eliminating noise without blurring relevant structural features, thus enabling efficient quantitative analysis in different scientific fields. International Union of Crystallography 2022-01-01 /pmc/articles/PMC8733986/ /pubmed/34985440 http://dx.doi.org/10.1107/S1600577521011139 Text en © Silja Flenner et al. 2022 https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution (CC-BY) Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original authors and source are cited. |
spellingShingle | Research Papers Flenner, Silja Bruns, Stefan Longo, Elena Parnell, Andrew J. Stockhausen, Kilian E. Müller, Martin Greving, Imke Machine learning denoising of high-resolution X-ray nanotomography data |
title | Machine learning denoising of high-resolution X-ray nanotomography data |
title_full | Machine learning denoising of high-resolution X-ray nanotomography data |
title_fullStr | Machine learning denoising of high-resolution X-ray nanotomography data |
title_full_unstemmed | Machine learning denoising of high-resolution X-ray nanotomography data |
title_short | Machine learning denoising of high-resolution X-ray nanotomography data |
title_sort | machine learning denoising of high-resolution x-ray nanotomography data |
topic | Research Papers |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8733986/ https://www.ncbi.nlm.nih.gov/pubmed/34985440 http://dx.doi.org/10.1107/S1600577521011139 |
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