csf-tracer-data
Published June 1, 2024 | Version v1
Dataset Open

Data for "Investigating molecular transport in the human brain from MRI with physics-informed neural networks"

Authors/Creators

  • 1. Expert Analytics As
  • 2. ROR icon University of Graz
  • 3. ROR icon Simula Research Laboratory
  • 4. Oslo University Hospital
  • 5. University of Oslo
  • 6. expert analytics as

Description

Data analyzed in Zapf et al. Investigating molecular transport in the human brain from MRI with physics-informed neural networks (Scientific Reports 2022).

The data consists of CSF tracer concentrations in the brain subregions analyzed in the article. The data was pre-processed as described in S1.1 in the supplementarty materials. 

In Python, load the data as numpy arrays using the nibabel package as

import nibabel
data = nibabel.load("068/concentrations/24h.mgz").get_fdata()
domain_mask = nibabel.load("068/masks/roi.mgz").get_fdata().astype(bool)
And view slices of the data as:
plt.figure()
plt.imshow(np.take(data, 150, 0), vmax=0.1)
plt.figure()
plt.imshow(np.take(data, 100, 1), vmax=0.1)
plt.figure()
plt.imshow(np.take(data, 100, 2), vmax=0.1)
plt.show()
 

Files

Files (6.1 MB)

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md5:85165fd72f8db232624d9d309729f442
6.1 MB Download

Additional details

Related works

Is described by
Publication: 10.1038/s41598-022-19157-w (DOI)