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Distinguishing cell types or populations based on the computational analysis of their infrared spectra

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Distinguishing cell types or populations based on the computational analysis of their infrared spectra. / Martin, Frank; Kerns, Jemma; Llabjani, Valon et al.
In: Nature Protocols, Vol. 5, No. 11, 11.2010, p. 1748-1760.

Research output: Contribution to Journal/Magazine › Journal article › peer-review

Harvard

Martin, F, Kerns, J, Llabjani, V, Martin-Hirsch, PL, Patel, II, Trevisan, J, Fullwood, NJ & Walsh, MJ 2010, 'Distinguishing cell types or populations based on the computational analysis of their infrared spectra', Nature Protocols, vol. 5, no. 11, pp. 1748-1760. https://doi.org/10.1038/nprot.2010.133

APA

Martin, F., Kerns, J., Llabjani, V., Martin-Hirsch, P. L., Patel, I. I., Trevisan, J., Fullwood, N. J., & Walsh, M. J. (2010). Distinguishing cell types or populations based on the computational analysis of their infrared spectra. Nature Protocols, 5(11), 1748-1760. https://doi.org/10.1038/nprot.2010.133

Vancouver

Martin F, Kerns J, Llabjani V, Martin-Hirsch PL, Patel II, Trevisan J et al. Distinguishing cell types or populations based on the computational analysis of their infrared spectra. Nature Protocols. 2010 Nov;5(11):1748-1760. doi: 10.1038/nprot.2010.133

Author

Martin, Frank ; Kerns, Jemma ; Llabjani, Valon et al. / Distinguishing cell types or populations based on the computational analysis of their infrared spectra. In: Nature Protocols. 2010 ; Vol. 5, No. 11. pp. 1748-1760.

Bibtex

@article{0706bd3d416341e8bf488bd41924a2d1,
title = "Distinguishing cell types or populations based on the computational analysis of their infrared spectra",
abstract = "Infrared (IR) spectroscopy of intact cells results in a fingerprint of their biochemistry in the form of an IR spectrum; this has given rise to the new field of biospectroscopy. This protocol describes sample preparation (a tissue section or cytology specimen), the application of IR spectroscopy tools, and computational analysis. Experimental considerations include optimization of specimen preparation, objective acquisition of a sufficient number of spectra, linking of the derived spectra with tissue architecture or cell type, and computational analysis. The preparation of multiple specimens (up to 50) takes 8 h; the interrogation of a tissue section can take up to 6 h (similar to 100 spectra); and cytology analysis (n = 50, 10 spectra per specimen) takes 14 h. IR spectroscopy generates complex data sets and analyses are best when initially based on a multivariate approach (principal component analysis with or without linear discriminant analysis). This results in the identification of class clustering as well as class-specific chemical entities.",
keywords = "MICRO-SPECTROSCOPY, MULTIVARIATE-ANALYSIS, MICROSPECTROSCOPY, TISSUE, SYNCHROTRON, CANCER, RAMAN, DISCRIMINATION, IDENTIFICATION, SCATTERING",
author = "Frank Martin and Jemma Kerns and Valon Llabjani and Martin-Hirsch, {Pierre L.} and Patel, {Imran I.} and Julio Trevisan and Fullwood, {Nigel J.} and Walsh, {Michael J.}",
year = "2010",
month = nov,
doi = "10.1038/nprot.2010.133",
language = "English",
volume = "5",
pages = "1748--1760",
journal = "Nature Protocols",
issn = "1754-2189",
publisher = "Nature Publishing Group",
number = "11",

}

RIS

TY - JOUR

T1 - Distinguishing cell types or populations based on the computational analysis of their infrared spectra

AU - Martin, Frank

AU - Kerns, Jemma

AU - Llabjani, Valon

AU - Martin-Hirsch, Pierre L.

AU - Patel, Imran I.

AU - Trevisan, Julio

AU - Fullwood, Nigel J.

AU - Walsh, Michael J.

PY - 2010/11

Y1 - 2010/11

N2 - Infrared (IR) spectroscopy of intact cells results in a fingerprint of their biochemistry in the form of an IR spectrum; this has given rise to the new field of biospectroscopy. This protocol describes sample preparation (a tissue section or cytology specimen), the application of IR spectroscopy tools, and computational analysis. Experimental considerations include optimization of specimen preparation, objective acquisition of a sufficient number of spectra, linking of the derived spectra with tissue architecture or cell type, and computational analysis. The preparation of multiple specimens (up to 50) takes 8 h; the interrogation of a tissue section can take up to 6 h (similar to 100 spectra); and cytology analysis (n = 50, 10 spectra per specimen) takes 14 h. IR spectroscopy generates complex data sets and analyses are best when initially based on a multivariate approach (principal component analysis with or without linear discriminant analysis). This results in the identification of class clustering as well as class-specific chemical entities.

AB - Infrared (IR) spectroscopy of intact cells results in a fingerprint of their biochemistry in the form of an IR spectrum; this has given rise to the new field of biospectroscopy. This protocol describes sample preparation (a tissue section or cytology specimen), the application of IR spectroscopy tools, and computational analysis. Experimental considerations include optimization of specimen preparation, objective acquisition of a sufficient number of spectra, linking of the derived spectra with tissue architecture or cell type, and computational analysis. The preparation of multiple specimens (up to 50) takes 8 h; the interrogation of a tissue section can take up to 6 h (similar to 100 spectra); and cytology analysis (n = 50, 10 spectra per specimen) takes 14 h. IR spectroscopy generates complex data sets and analyses are best when initially based on a multivariate approach (principal component analysis with or without linear discriminant analysis). This results in the identification of class clustering as well as class-specific chemical entities.

KW - MICRO-SPECTROSCOPY

KW - MULTIVARIATE-ANALYSIS

KW - MICROSPECTROSCOPY

KW - TISSUE

KW - SYNCHROTRON

KW - CANCER

KW - RAMAN

KW - DISCRIMINATION

KW - IDENTIFICATION

KW - SCATTERING

UR - http://www.scopus.com/inward/record.url?scp=78049323886&partnerID=8YFLogxK

U2 - 10.1038/nprot.2010.133

DO - 10.1038/nprot.2010.133

M3 - Journal article

C2 - 21030951

VL - 5

SP - 1748

EP - 1760

JO - Nature Protocols

JF - Nature Protocols

SN - 1754-2189

IS - 11

ER -