Miriam Menzel

Miriam Menzel
Forschungszentrum Jülich · Institute of Neurosciences and Medicine (INM-1)

Dr. rer. nat. (PhD Physics)

About

53
Publications
4,334
Reads
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243
Citations
Introduction
My research aims at developing new light microscopy techniques and analysis tools for brain research. In particular, I exploit the scattering of light to visualize complex brain tissue structures and nerve fiber constellations.
Additional affiliations
September 2021 - February 2022
Stanford University
Position
  • PostDoc Position
Description
  • X-ray scattering on human brain tissue
January 2020 - February 2020
Delft University of Technology
Position
  • Researcher
Description
  • Scatterometry and optical tomography of brain tissue
November 2018 - present
Forschungszentrum Jülich
Position
  • PostDoc Position
Description
  • Simulations and measurements of light scattering in brain tissue
Education
October 2013 - November 2018
RWTH Aachen University
Field of study
  • Physics (Ph.D. / M.Sc.)
October 2012 - June 2013
Imperial College London
Field of study
  • Physics (Imperial College International Diploma)
October 2009 - September 2012
RWTH Aachen University
Field of study
  • Physics (B.Sc.)

Publications

Publications (53)
Preprint
Full-text available
The correct reconstruction of individual (crossing) nerve fibers is a prerequisite when constructing a detailed network model of the brain. The recently developed technique Scattered Light Imaging (SLI) allows the reconstruction of crossing nerve fiber pathways in whole brain tissue samples with micrometer resolution: The individual fiber orientati...
Article
Full-text available
For developing a detailed network model of the brain based on image reconstructions, it is necessary to spatially resolve crossing nerve fibers. The accuracy hereby depends on many factors, including the spatial resolution of the imaging technique. 3D Polarized Light Imaging (3D-PLI) allows the three-dimensional reconstruction of nerve fiber tracts...
Article
Full-text available
Previous simulation studies by Menzel et al. [Phys. Rev. X 10, 021002 (2020)] have shown that scattering patterns of light transmitted through artificial nerve fiber constellations contain valuable information about the tissue substructure such as the individual fiber orientations in regions with crossing nerve fibers. Here, we present a method tha...
Article
Full-text available
Unraveling the structure and function of the brain requires a detailed knowledge about the neuronal connections, i.e., the spatial architecture of the nerve fibers. One of the most powerful histological methods to reconstruct the three-dimensional nerve fiber pathways is 3D-polarized light imaging (3D-PLI). The technique measures the birefringence...
Preprint
Scattered Light Imaging (SLI) is a novel approach for microscopically revealing the fibre architecture of unstained brain sections. The measurements are obtained by illuminating brain sections from different angles and measuring the transmitted (scattered) light under normal incidence. The evaluation of scattering profiles commonly relies on a peak...
Article
Full-text available
The method 3D polarised light imaging (3D-PLI) measures the birefringence of histological brain sections to determine the spatial course of nerve fibres (myelinated axons). While the in-plane fibre directions can be determined with high accuracy, the computation of the out-of-plane fibre inclinations is more challenging because they are derived fro...
Article
Full-text available
The correct reconstruction of individual (crossing) nerve fibers is a prerequisite when constructing a detailed network model of the brain. The recently developed technique Scattered Light Imaging (SLI) allows the reconstruction of crossing nerve fiber pathways in whole brain tissue samples with micrometer resolution: the individual fiber orientati...
Preprint
The method 3D polarised light imaging (3D-PLI) measures the birefringence of histological brain sections to determine the spatial course of nerve fibres (myelinated axons). While the in-plane fibre directions can be determined with high accuracy, the computation of the out-of-plane fibre inclinations is more challenging because they are derived fro...
Chapter
In recent years, Independent Component Analysis (ICA) has successfully been applied to remove noise and artifacts in images obtained from Three-dimensional Polarized Light Imaging (3D-PLI) at the mesoscale (i.e., 64 μm). Here, we present an automatic denoising procedure for gray matter regions that allows to apply the ICA also to microscopic images...
Article
Full-text available
Analyzing the structure of neuronal fibers with single axon resolution in large volumes is a challenge in connectomics. Different technologies try to address this goal; however, they are limited either by the ineffective labeling of the fibers or in the achievable resolution. The possibility of discriminating between different adjacent myelinated a...
Preprint
Full-text available
In recent years, Independent Component Analysis (ICA) has successfully been applied to remove noise and artifacts in images obtained from Three-dimensional Polarized Light Imaging (3D-PLI) at the mesoscale (i.e., 64 $\mu$m). Here, we present an automatic denoising procedure for gray matter regions that allows to apply the ICA also to microscopic im...
Preprint
Full-text available
For developing a detailed network model of the brain based on image reconstructions, it is necessary to spatially resolve crossing nerve fibers. The accuracy hereby depends on many factors, including the spatial resolution of the imaging technique. 3D Polarized Light Imaging (3D-PLI) allows the three-dimensional reconstruction of nerve fiber pathwa...
Preprint
Analyzing the structure of neuronal fibers with single axon resolution, in large volumes, remains an unresolved challenge in connectomics. Here, we propose MAGIC (Myelin Autofluorescence imaging by Glycerol Induced Contrast enhancement), a simple tissue preparation method to perform label-free fluorescence imaging of myelinated fibers. We demonstra...
Preprint
Full-text available
Previous simulation studies by Menzel et al. [Phys. Rev. X 10, 021002 (2020)] have shown that scattering patterns of light transmitted through artificial nerve fiber constellations contain valuable information about the tissue substructure such as the crossing angles of the fibers. Here, we present a method that measures these scattering patterns i...
Conference Paper
We show that light scattering measurements of brain tissue reveal valuable information about the underlying tissue structure such as the crossing angle of the nerve fibers.
Article
Full-text available
Purpose The technique 3D polarized light imaging (3D-PLI) allows to reconstruct nerve fiber orientations of postmortem brains with ultra-high resolution. To better understand the physical principles behind 3D-PLI and improve the accuracy and reliability of the reconstructed fiber orientations, numerical simulations are employed which use synthetic...
Article
Full-text available
A correction to this article has been published and is linked from the HTML and PDF versions of this paper. The error has not been fixed in the paper.
Conference Paper
We explore the polarization-(in)dependent transmitted light intensity of histological brain sections. Using experimental and simulation studies, we demonstrate that it contains valuable information about nerve fiber architecture and tissue structure.
Article
Full-text available
When transmitting polarised light through histological brain sections, different types of diattenuation (polarisation-dependent attenuation of light) can be observed: In some brain regions, the light is minimally attenuated when it is polarised parallel to the nerve fibres (referred to as D+), in others, it is maximally attenuated (referred to as D...
Thesis
Full-text available
The neuroimaging technique Three-dimensional Polarized Light Imaging (3D-PLI) reconstructs the brain’s nerve fiber architecture by transmitting polarized light through histological brain sections and measuring their birefringence. Measurements have shown that the polarization-independent transmitted light intensity (transmittance) depends on the ou...
Preprint
Full-text available
In brain tissue, two different types of diattenuation (polarization-dependent attenuation) can be observed: in some brain regions, the light is minimally (maximally) attenuated when it is polarized parallel to the nerve fibers, referred to as $D^+$ ($D^-$). Here, we demonstrate that diattenuation of type $D^+$ or $D^-$ is observed in brain tissue s...
Preprint
Full-text available
The neuroimaging technique Three-dimensional Polarized Light Imaging (3D-PLI) is used to reconstruct the brain's nerve fiber architecture by transmitting polarized light through histological brain sections and measuring their birefringence. Here, we demonstrate in experimental studies that the polarization-independent transmitted light intensity (t...
Article
Full-text available
3D-Polarized Light Imaging (3D-PLI) reconstructs nerve fibers in histological brain sections by measuring their birefringence. This study investigates another effect caused by the optical anisotropy of brain tissue - diattenuation. Based on numerical and experimental studies and a complete analytical description of the optical system, the diattenua...
Conference Paper
In this work, we employ an integrated label-free dual approach that combines 3D-Polarized light imaging with two-photon fluorescence microscopy to study the mixture of various fiber orientations within the sample of interest.
Conference Paper
Full-text available
Three-dimensional Polarized Light Imaging (3D-PLI) is a promising technique to reconstruct the nerve fiber architecture of human post-mortem brains from birefringence measurements of histological brain sections with micrometer resolution. To better understand how the reconstructed fiber orientations are related to the underlying fiber structure, nu...
Article
Full-text available
Three-dimensional Polarized Light Imaging (3D-PLI) is a promising technique to reconstruct the nerve fiber architecture of human post-mortem brains from birefringence measurements of histological brain sections with micrometer resolution. To better understand how the reconstructed fiber orientations are related to the underlying fiber structure, nu...
Article
Full-text available
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...
Conference Paper
3D Polarized Light Imaging is a neuroimaging technique that provides a high-resolution reconstruction of nerve fiber pathways in human postmortem brains. The spatial fiber orientations are derived from birefringence measurements of histological brain sections which are interpreted by a macroscopic model of uniaxial birefringence. In order to valida...
Article
3D Polarized Light Imaging (3D-PLI) is a neuroimaging technique that has opened up new avenues to study the complex architecture of nerve fibers in postmortem brains. The spatial orientations of the fibers are derived from birefringence measurements of unstained histological brain sections that are interpreted by a voxel-based analysis. This, howev...
Thesis
Three-dimensional Polarized Light Imaging (3D-PLI) is a neuroimaging technique that is able to reconstruct the pathways of nerve fibers in post-mortem brains at the micrometer scale: By transmitting polarized light through histological brain sections in a polarimeter, the birefringence of the nerve fibers is measured, thus revealing their spatial o...

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