Fig. 1
The ChOP-CT tool in a nutshell. Summary of the ChOP-CT protocol. Shortly, the µCT scanning of the stained embryo is followed by the tomography reconstruction and 3D rendering. Then, the brain ventricular system is segmented. After this, the ChOP-CT script operates with the extracted 4th ventricle, where the Hindbrain Choroid Plexus is located. The final Hindbrain Choroid Plexus 3D model is obtained by the application of the active contour and subsequent 3D modelling. The obtained Hindbrain Choroid Plexus 3D model is then used for the morphological analysis. For further details, please, see the section Materials and Methods. Of note, WT E15.5 embryo was here used for the demonstration of the ChOP-CT workflow. 3D three dimensional, µCT X-ray micro-computed tomography, E embryonic day, ChOP-CT ChOPping the ChOroid Plexus out of the µCT data, WT wild-type