Denoising of Raman spectroscopy for biological samples based on empirical mode decomposition

Fabiola León-Bejarano (), Miguel Ramírez-Elías, Martin O. Mendez (), Guadalupe Dorantes-Méndez (), Ma. del Carmen Rodríguez-Aranda () and Alfonso Alba ()
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Fabiola León-Bejarano: Facultad de Ciencias, Universidad Autónoma de San Luis Potosí, Av. Salvador Nava Mtz. S/N, Zona Universitaria, San Luis Potosí, SLP, 78290, México
Miguel Ramírez-Elías: Facultad de Ciencias, Universidad Autónoma de San Luis Potosí, Av. Salvador Nava Mtz. S/N, Zona Universitaria, San Luis Potosí, SLP, 78290, México
Martin O. Mendez: Facultad de Ciencias, Universidad Autónoma de San Luis Potosí, Av. Salvador Nava Mtz. S/N, Zona Universitaria, San Luis Potosí, SLP, 78290, México
Guadalupe Dorantes-Méndez: Facultad de Ciencias, Universidad Autónoma de San Luis Potosí, Av. Salvador Nava Mtz. S/N, Zona Universitaria, San Luis Potosí, SLP, 78290, México
Ma. del Carmen Rodríguez-Aranda: Coordinación para la Innovación y Aplicación de la, Ciencia y la Tecnología, Universidad Autónoma de, San Luis Potosí Av. Sierra Leona 550, Col. Lomas 2a. Sección, San Luis Potosí, SLP, 78210, México
Alfonso Alba: Facultad de Ciencias, Universidad Autónoma de San Luis Potosí, Av. Salvador Nava Mtz. S/N, Zona Universitaria, San Luis Potosí, SLP, 78290, México

International Journal of Modern Physics C (IJMPC), 2017, vol. 28, issue 09, 1-18

Abstract: Raman spectroscopy of biological samples presents undesirable noise and fluorescence generated by the biomolecular excitation. The reduction of these types of noise is a fundamental task to obtain the valuable information of the sample under analysis. This paper proposes the application of the empirical mode decomposition (EMD) for noise elimination. EMD is a parameter-free and adaptive signal processing method useful for the analysis of nonstationary signals. EMD performance was compared with the commonly used Vancouver algorithm (VRA) through artificial data (Teflon), synthetic (Vitamin E and paracetamol) and biological (Mouse brain and human nails) Raman spectra. The correlation coefficient (ρ) was used as performance measure. Results on synthetic data showed a better performance of EMD (ρ=0.52) at high noise levels compared with VRA (ρ=0.19). The methods with simulated fluorescence added to artificial material exhibited a similar shape of fluorescence in both cases (ρ=0.95 for VRA and ρ=0.93 for EMD). For synthetic data, Raman spectra of vitamin E were used and the results showed a good performance comparing both methods (ρ=0.95 for EMD and ρ=0.99 for VRA). Finally, in biological data, EMD and VRA displayed a similar behavior (ρ=0.85 for EMD and ρ=0.96 for VRA), but with the advantage that EMD maintains small amplitude Raman peaks. The results suggest that EMD could be an effective method for denoising biological Raman spectra, EMD is able to retain information and correctly eliminates the fluorescence without parameter tuning.

Keywords: Background removal; autofluorescence; signal denoising; time frequency analysis; Raman spectroscopy (search for similar items in EconPapers)
Date: 2017
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DOI: 10.1142/S0129183117501169

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