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@ARTICLE{Menzel:205172,
      author       = {Menzel, Miriam and Michielsen, Kristel and De Raedt, H. and
                      Reckfort, Julia and Amunts, Katrin and Axer, Markus},
      title        = {{A} {J}ones matrix formalism for simulating
                      three-dimensional polarized light imaging of brain tissue},
      journal      = {Interface},
      volume       = {12},
      number       = {111},
      issn         = {1742-5662},
      address      = {London},
      publisher    = {The Royal Society},
      reportid     = {FZJ-2015-05614},
      pages        = {20150734},
      year         = {2015},
      abstract     = {The neuroimaging technique three-dimensional polarized
                      light imaging (3D-PLI) provides a high-resolution
                      reconstruction of nerve fibres in human post-mortem brains.
                      The orientations of the fibres are derived from
                      birefringence measurements of histological brain sections
                      assuming that the nerve fibres—consisting of an axon and a
                      surrounding myelin sheath—are uniaxial birefringent and
                      that the measured optic axis is oriented in the direction of
                      the nerve fibres (macroscopic model). Although experimental
                      studies support this assumption, the molecular structure of
                      the myelin sheath suggests that the birefringence of a nerve
                      fibre can be described more precisely by multiple optic axes
                      oriented radially around the fibre axis (microscopic model).
                      In this paper, we compare the use of the macroscopic and the
                      microscopic model for simulating 3D-PLI by means of the
                      Jones matrix formalism. The simulations show that the
                      macroscopic model ensures a reliable estimation of the fibre
                      orientations as long as the polarimeter does not resolve
                      structures smaller than the diameter of single fibres. In
                      the case of fibre bundles, polarimeters with even higher
                      resolutions can be used without losing reliability. When
                      taking the myelin density into account, the derived fibre
                      orientations are considerably improved.},
      cin          = {INM-1 / JSC},
      ddc          = {500},
      cid          = {I:(DE-Juel1)INM-1-20090406 / I:(DE-Juel1)JSC-20090406},
      pnm          = {574 - Theory, modelling and simulation (POF3-574) / 511 -
                      Computational Science and Mathematical Methods (POF3-511) /
                      SMHB - Supercomputing and Modelling for the Human Brain
                      (HGF-SMHB-2013-2017) / HBP - The Human Brain Project
                      (604102)},
      pid          = {G:(DE-HGF)POF3-574 / G:(DE-HGF)POF3-511 /
                      G:(DE-Juel1)HGF-SMHB-2013-2017 / G:(EU-Grant)604102},
      typ          = {PUB:(DE-HGF)16},
      UT           = {WOS:000363487600027},
      pubmed       = {pmid:26446561},
      doi          = {10.1098/rsif.2015.0734},
      url          = {https://juser.fz-juelich.de/record/205172},
}