title: Preprocessing methods of Raman spectra for source extraction on biomedical samples: application on paraffin-embedded skin biopsies.
abstract: Raman spectra are classically modeled as a linear mixing of spectra of molecular constituents of the analyzed sample. Source separation methods are thus well suited to estimate these constituent spectra. However, physical distortions due to the instrumentation and biological nature of samples add nonlinearities to the Raman spectra model. These distortions are dark current, detector and optic responses, fluorescence background, and peak misalignment and peak width heterogeneity. The source separation results are thus deteriorated by these effects. We propose to develop specific preprocessing steps to correct these distortions and to retrieve a linear model. The benefits brought by these steps are studied by the application of two different source separation methods named joint approximate diagonalization of eigenmatrices and maximum likelihood positive source separation after the application of each step on a dataset acquired on a paraffin-embedded human skin biopsy. The efficacy of these methods to separate Raman spectra is also discussed.
authors.affiliation: Unité MéDIAN, Centre National de Recherche Scientifique (CNRS) UMR 6237 MEDyC, UFR de Pharmacie, IFR 53, Université de Reims Champagne-Ardenne, 51096 Reims Cedex, France. cyril.gobinet@univ-reims.fr
authors.forename: Cyril
authors.initials: C
authors.lastname: Gobinet
authors.forename: Valeriu
authors.initials: V
authors.lastname: Vrabie
authors.forename: Michel
authors.initials: M
authors.lastname: Manfait
authors.forename: Olivier
authors.initials: O
authors.lastname: Piot
mesh_terms: D000465:Algorithms; D001706:Biopsy; D003627:Data Interpretation, Statistical; D006801:Humans; D016014:Linear Models; D008954:Models, Biological; D016612:Paraffin Embedding; D025341:Principal Component Analysis; D012815:Signal Processing, Computer-Assisted; D012867:Skin / Q000737:chemistry*; D013048:Specimen Handling; D013059:Spectrum Analysis, Raman