title: Quantitative IR microscopy and spectromics open the way to 3D digital pathology.
abstract: Currently, only mass-spectrometry (MS) microscopy brings a quantitative analysis of chemical contents of tissue samples in 3D. Here, the reconstruction of a 3D quantitative chemical images of a biological tissue by FTIR spectro-microscopy is reported. An automated curve-fitting method is developed to extract all intense absorption bands constituting IR spectra. This innovation benefits from three critical features: (1) the correction of raw IR spectra to make them quantitatively comparable; (2) the automated and iterative data treatment allowing to transfer the IR-absorption spectrum into a IR-band spectrum; (3) the reconstruction of an 3D IR-band matrix (x, y, z for voxel position and a 4thdimension with all IR-band parameters). Spectromics, which is a new method for exploiting spectral data for tissue metadata reconstruction, is proposed to further translate the related chemical information in 3D, as biochemical and anatomical tissue parameters. An example is given with oxidative stress distribution and the reconstruction of blood vessels in tissues. The requirements of IR microscopy instrumentation to propose 3D digital histology as a clinical routine technology is briefly discussed.
authors.affiliation: University of Bordeaux, Inserm U1029 LAMC, Allée Geoffroy Saint Hillaire, Bat B2, F33600, Pessac, France.
authors.forename: Vladimir
authors.initials: V
authors.lastname: Bobroff
authors.affiliation: University of Bordeaux, Inserm U1029 LAMC, Allée Geoffroy Saint Hillaire, Bat B2, F33600, Pessac, France.
authors.forename: Hsiang-Hsin
authors.initials: HH
authors.lastname: Chen
authors.affiliation: University of Bordeaux, Inserm U1029 LAMC, Allée Geoffroy Saint Hillaire, Bat B2, F33600, Pessac, France.
authors.forename: Maylis
authors.initials: M
authors.lastname: Delugin
authors.affiliation: University of Bordeaux, Inserm U1029 LAMC, Allée Geoffroy Saint Hillaire, Bat B2, F33600, Pessac, France.
authors.forename: Sophie
authors.initials: S
authors.lastname: Javerzat
authors.affiliation: University of Bordeaux, Inserm U1029 LAMC, Allée Geoffroy Saint Hillaire, Bat B2, F33600, Pessac, France.
authors.forename: Cyril
authors.initials: C
authors.lastname: Petibois
mesh_terms: D000818:Animals; D001921:Brain / Q000098:blood supply / Q000166:cytology / Q000000981:diagnostic imaging / Q000378:metabolism; D021621:Imaging, Three-Dimensional / Q000379:methods*; D051379:Mice; D008853:Microscopy / Q000379:methods*; D010363:Pattern Recognition, Automated; D017550:Spectroscopy, Fourier Transform Infrared / Q000379:methods*
keywords: chemical imaging; digital pathology; histology; infrared microscopy; quantitative analysis; spectromics