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Raman spectroscopy and group and basis-restricted non negative matrix factorisation identifies radiation induced metabolic changes in human cancer cells

This work combines single cell Raman spectroscopy (RS) with group and basis restricted non-negative matrix factorisation (GBR-NMF) to identify individual biochemical changes associated with radiation exposure in three human cancer cell lines. The cell lines analysed were derived from lung (H460), br...

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Autores principales: Milligan, Kirsty, Deng, Xinchen, Shreeves, Phillip, Ali-Adeeb, Ramie, Matthews, Quinn, Brolo, Alexandre, Lum, Julian J., Andrews, Jeffrey L., Jirasek, Andrew
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7886912/
https://www.ncbi.nlm.nih.gov/pubmed/33594122
http://dx.doi.org/10.1038/s41598-021-83343-5
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author Milligan, Kirsty
Deng, Xinchen
Shreeves, Phillip
Ali-Adeeb, Ramie
Matthews, Quinn
Brolo, Alexandre
Lum, Julian J.
Andrews, Jeffrey L.
Jirasek, Andrew
author_facet Milligan, Kirsty
Deng, Xinchen
Shreeves, Phillip
Ali-Adeeb, Ramie
Matthews, Quinn
Brolo, Alexandre
Lum, Julian J.
Andrews, Jeffrey L.
Jirasek, Andrew
author_sort Milligan, Kirsty
collection PubMed
description This work combines single cell Raman spectroscopy (RS) with group and basis restricted non-negative matrix factorisation (GBR-NMF) to identify individual biochemical changes associated with radiation exposure in three human cancer cell lines. The cell lines analysed were derived from lung (H460), breast (MCF7) and prostate (LNCaP) tissue and are known to display varying degrees of radio sensitivity due to the inherent properties of each cell type. The GBR-NMF approach involves the deconstruction of Raman spectra into component biochemical bases using a library of Raman spectra of known biochemicals present in the cells. Subsequently, scores are obtained on each of these bases which can be directly correlated with the contribution of each chemical to the overall Raman spectrum. We validated GBR-NMF through the correlation of GBR-NMF-derived glycogen scores with scores that were previously observed using principal component analysis (PCA). Phosphatidylcholine, glucose, arginine and asparagine showed a distinct differential score pattern between radio-resistant and radio-sensitive cell types. In summary, the GBR-NMF approach allows for the monitoring of individual biochemical radiation-response dynamics previously unattainable with more traditional PCA-based approaches.
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spelling pubmed-78869122021-02-18 Raman spectroscopy and group and basis-restricted non negative matrix factorisation identifies radiation induced metabolic changes in human cancer cells Milligan, Kirsty Deng, Xinchen Shreeves, Phillip Ali-Adeeb, Ramie Matthews, Quinn Brolo, Alexandre Lum, Julian J. Andrews, Jeffrey L. Jirasek, Andrew Sci Rep Article This work combines single cell Raman spectroscopy (RS) with group and basis restricted non-negative matrix factorisation (GBR-NMF) to identify individual biochemical changes associated with radiation exposure in three human cancer cell lines. The cell lines analysed were derived from lung (H460), breast (MCF7) and prostate (LNCaP) tissue and are known to display varying degrees of radio sensitivity due to the inherent properties of each cell type. The GBR-NMF approach involves the deconstruction of Raman spectra into component biochemical bases using a library of Raman spectra of known biochemicals present in the cells. Subsequently, scores are obtained on each of these bases which can be directly correlated with the contribution of each chemical to the overall Raman spectrum. We validated GBR-NMF through the correlation of GBR-NMF-derived glycogen scores with scores that were previously observed using principal component analysis (PCA). Phosphatidylcholine, glucose, arginine and asparagine showed a distinct differential score pattern between radio-resistant and radio-sensitive cell types. In summary, the GBR-NMF approach allows for the monitoring of individual biochemical radiation-response dynamics previously unattainable with more traditional PCA-based approaches. Nature Publishing Group UK 2021-02-16 /pmc/articles/PMC7886912/ /pubmed/33594122 http://dx.doi.org/10.1038/s41598-021-83343-5 Text en © The Author(s) 2021 Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Milligan, Kirsty
Deng, Xinchen
Shreeves, Phillip
Ali-Adeeb, Ramie
Matthews, Quinn
Brolo, Alexandre
Lum, Julian J.
Andrews, Jeffrey L.
Jirasek, Andrew
Raman spectroscopy and group and basis-restricted non negative matrix factorisation identifies radiation induced metabolic changes in human cancer cells
title Raman spectroscopy and group and basis-restricted non negative matrix factorisation identifies radiation induced metabolic changes in human cancer cells
title_full Raman spectroscopy and group and basis-restricted non negative matrix factorisation identifies radiation induced metabolic changes in human cancer cells
title_fullStr Raman spectroscopy and group and basis-restricted non negative matrix factorisation identifies radiation induced metabolic changes in human cancer cells
title_full_unstemmed Raman spectroscopy and group and basis-restricted non negative matrix factorisation identifies radiation induced metabolic changes in human cancer cells
title_short Raman spectroscopy and group and basis-restricted non negative matrix factorisation identifies radiation induced metabolic changes in human cancer cells
title_sort raman spectroscopy and group and basis-restricted non negative matrix factorisation identifies radiation induced metabolic changes in human cancer cells
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7886912/
https://www.ncbi.nlm.nih.gov/pubmed/33594122
http://dx.doi.org/10.1038/s41598-021-83343-5
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