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

Abstract 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 (...

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Autores principales:	Kirsty Milligan, Xinchen Deng, Phillip Shreeves, Ramie Ali-Adeeb, Quinn Matthews, Alexandre Brolo, Julian J. Lum, Jeffrey L. Andrews, Andrew Jirasek
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/be7d93b845f34652a78ac742d2abbcae
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spelling	oai:doaj.org-article:be7d93b845f34652a78ac742d2abbcae2021-12-02T14:21:59ZRaman spectroscopy and group and basis-restricted non negative matrix factorisation identifies radiation induced metabolic changes in human cancer cells10.1038/s41598-021-83343-52045-2322https://doaj.org/article/be7d93b845f34652a78ac742d2abbcae2021-02-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-83343-5https://doaj.org/toc/2045-2322Abstract 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.Kirsty MilliganXinchen DengPhillip ShreevesRamie Ali-AdeebQuinn MatthewsAlexandre BroloJulian J. LumJeffrey L. AndrewsAndrew JirasekNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-11 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Kirsty Milligan Xinchen Deng Phillip Shreeves Ramie Ali-Adeeb Quinn Matthews Alexandre Brolo Julian J. Lum Jeffrey L. Andrews Andrew Jirasek Raman spectroscopy and group and basis-restricted non negative matrix factorisation identifies radiation induced metabolic changes in human cancer cells
description	Abstract 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.
format	article
author	Kirsty Milligan Xinchen Deng Phillip Shreeves Ramie Ali-Adeeb Quinn Matthews Alexandre Brolo Julian J. Lum Jeffrey L. Andrews Andrew Jirasek
author_facet	Kirsty Milligan Xinchen Deng Phillip Shreeves Ramie Ali-Adeeb Quinn Matthews Alexandre Brolo Julian J. Lum Jeffrey L. Andrews Andrew Jirasek
author_sort	Kirsty Milligan
title	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_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_sort	raman spectroscopy and group and basis-restricted non negative matrix factorisation identifies radiation induced metabolic changes in human cancer cells
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/be7d93b845f34652a78ac742d2abbcae
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Raman spectroscopy and group and basis-restricted non negative matrix factorisation identifies radiation induced metabolic changes in human cancer cells

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