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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...

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Detalles Bibliográficos
Autores principales: Flenner, Silja, Bruns, Stefan, Longo, Elena, Parnell, Andrew J., Stockhausen, Kilian E., Müller, Martin, Greving, Imke
Formato: Online Artículo Texto
Lenguaje:English
Publicado: International Union of Crystallography 2022
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.
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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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