000859427 001__ 859427
000859427 005__ 20210130000254.0
000859427 0247_ $$2arXiv$$aarXiv:1806.07157
000859427 0247_ $$2Handle$$a2128/21187
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000859427 037__ $$aFZJ-2019-00285
000859427 1001_ $$0P:(DE-Juel1)161196$$aMenzel, Miriam$$b0$$eCorresponding author
000859427 245__ $$aFinite-Difference Time-Domain simulations of transmission microscopy enable a better interpretation of 3D nerve fiber architectures in the brain
000859427 260__ $$c2018
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000859427 500__ $$a15 pages, 6 figures (main part); 18 pages, 13 figures, 2 tables (supplementary information)   	https://arxiv.org/abs/1806.07157
000859427 520__ $$aTransmission microscopy measurements of histological brain sections provide usually only 2D (in-plane) information about the spatial nerve fibre architecture. To access the third dimension (out-of-plane orientation) of the nerve fibres, more advanced techniques are required, such as Three-dimensional Polarized Light Imaging (3D-PLI) which uses birefringence measurements to derive the 3D fibre orientations. Here, we show that the polarization-independent transmitted light intensity (transmittance) already contains 3D information: we demonstrate in experimental studies of multiple species (rodent, monkey, human) that the transmittance decreases significantly (by more than 50 %) with increasing out-of-plane angle of the nerve fibres. Using finite-difference time-domain simulations, we demonstrate that this decrease is mainly caused by polarization-independent light scattering in combination with the finite numerical aperture of the imaging system, and that the transmittance does not depend on the crossing angle between in-plane fibres. This allows to use the transmittance e.g. to distinguish between in-plane crossing and out-of-plane nerve fibres in 3D-PLI measurements.
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000859427 536__ $$0G:(EU-Grant)785907$$aHBP SGA2 - Human Brain Project Specific Grant Agreement 2 (785907)$$c785907$$fH2020-SGA-FETFLAG-HBP-2017$$x4
000859427 536__ $$0G:(EU-Grant)720270$$aHBP SGA1 - Human Brain Project Specific Grant Agreement 1 (720270)$$c720270$$fH2020-Adhoc-2014-20$$x5
000859427 588__ $$aDataset connected to arXivarXiv
000859427 7001_ $$0P:(DE-Juel1)131632$$aAxer, Markus$$b1$$ufzj
000859427 7001_ $$0P:(DE-HGF)0$$aDe Raedt, Hans$$b2
000859427 7001_ $$0P:(DE-HGF)0$$aCostantini, Irene$$b3
000859427 7001_ $$0P:(DE-HGF)0$$aSilvestri, Ludovico$$b4
000859427 7001_ $$0P:(DE-HGF)0$$aPavone, Francesco S.$$b5
000859427 7001_ $$0P:(DE-Juel1)131631$$aAmunts, Katrin$$b6$$ufzj
000859427 7001_ $$0P:(DE-Juel1)138295$$aMichielsen, Kristel$$b7$$ufzj
000859427 773__ $$0PERI:(DE-600)2465034-1$$y2018
000859427 8564_ $$uhttps://arxiv.org/abs/1806.07157
000859427 8564_ $$uhttps://juser.fz-juelich.de/record/859427/files/1806.07157.pdf$$yOpenAccess
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000859427 9141_ $$y2018
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