Saturday, February 22, 2014

Basal ganglia structures

There is an interesting website from U Tokyo, which hosts a repository of 3D models of various anatomical structures. I first found out about this website during a course on medical robotics, and am now encountering again in a basic neuroscience course. The site is called "BodyParts3D" and can be accessed here. Unfortunately, the site appears to be rather slow when accessing it from the US. Also, the navigation seems to be somewhat convoluted (at least for me). Try to figure out how to download specific 3D data!

I am currently interested in the anatomy of the deep nuclei in the human brain. Based on cross-sections presented in class, they appear to have an exquisite three-dimensional structure, and I'd like to get a better sense of the layout using 3D models.

In particular, I am interested in the following basal ganglia structures:
  • Caudate
  • Putamen
  • Globus pallidus
  • Subthalamic nucleus
  • Substantia nigra
  • Ventricular system
  • Internal capsule
For example, I was able to download the data for the left and right caudate nuclei (looks like something out of Alien):

A view of the ventricular system, with the "hole" in the middle presumably being space for the interthalamic adhesion:

Basal ganglia assembly (subthalamic nucleus, substantia nigra missing, because BodyParts3D doesn't have files for those structures). Also showing the middle cerebral artery:

Manipulating the CAD assembly:

Viewed from the bottom (gray structure in the midline is hypothalamus; gray structure directly medial to green / putamen is globus pallidus) The anterior, posterior limbs of the internal capsule is very visible, as is the genu (kink in the internal capsule). The thalamus (yellow) clearly abuts only the posterior limb of the internal capsule:

Transverse section:

Meanwhile, this is a nice diagram of the basal ganglia "circuit":

1 comment:

  1. Im having trouble finding the file (dont speak japanese) for all 4 cerebral ventricles. Could you send me a direct link? cameron olsen 7 @ gmail