title: Automatic identification of gray and white matter components in polarized light imaging.
abstract: Polarized light imaging (PLI) enables the visualization of fiber tracts with high spatial resolution in microtome sections of postmortem brains. Vectors of the fiber orientation defined by inclination and direction angles can directly be derived from the optical signals employed by PLI analysis. The polarization state of light propagating through a rotating polarimeter is varied in such a way that the detected signal of each spatial unit describes a sinusoidal signal. Noise, light scatter and filter inhomogeneities, however, interfere with the original sinusoidal PLI signals, which in turn have direct impact on the accuracy of subsequent fiber tracking. Recently we showed that the primary sinusoidal signals can effectively be restored after noise and artifact rejection utilizing independent component analysis (ICA). In particular, regions with weak intensities are greatly enhanced after ICA based artifact rejection and signal restoration. Here, we propose a user independent way of identifying the components of interest after decomposition; i.e., components that are related to gray and white matter. Depending on the size of the postmortem brain and the section thickness, the number of independent component maps can easily be in the range of a few ten thousand components for one brain. Therefore, we developed an automatic and, more importantly, user independent way of extracting the signal of interest. The automatic identification of gray and white matter components is based on the evaluation of the statistical properties of the so-called feature vectors of each individual component map, which, in the ideal case, shows a sinusoidal waveform. Our method enables large-scale analysis (i.e., the analysis of thousands of whole brain sections) of nerve fiber orientations in the human brain using polarized light imaging.
authors.affiliation: Institute of Neuroscience and Medicine (INM-1, INM-2, INM-4), Research Centre Jülich, Germany. J.Dammers@fz-juelich.de
authors.forename: Jürgen
authors.initials: J
authors.lastname: Dammers
authors.forename: Lukas
authors.initials: L
authors.lastname: Breuer
authors.forename: Markus
authors.initials: M
authors.lastname: Axer
authors.forename: Melanie
authors.initials: M
authors.lastname: Kleiner
authors.forename: Björn
authors.initials: B
authors.lastname: Eiben
authors.forename: David
authors.initials: D
authors.lastname: Grässel
authors.forename: Timo
authors.initials: T
authors.lastname: Dickscheid
authors.forename: Karl
authors.initials: K
authors.lastname: Zilles
authors.forename: Katrin
authors.initials: K
authors.lastname: Amunts
authors.forename: N Joni
authors.initials: NJ
authors.lastname: Shah
authors.forename: Uwe
authors.initials: U
authors.lastname: Pietrzyk
mesh_terms: D000465:Algorithms; D001185:Artificial Intelligence; D001921:Brain / Q000166:cytology*; D006801:Humans; D007089:Image Enhancement / Q000379:methods; D007090:Image Interpretation, Computer-Assisted / Q000379:methods*; D008029:Lighting / Q000379:methods*; D008859:Microscopy, Polarization / Q000379:methods*; D009413:Nerve Fibers, Myelinated / Q000648:ultrastructure*; D009474:Neurons / Q000166:cytology*; D010363:Pattern Recognition, Automated / Q000379:methods*; D015203:Reproducibility of Results; D012680:Sensitivity and Specificity