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

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()