Brain Anatomy Basics & Region Drawing

Before practicum on Friday, please complete following:

• Read through Intro to Neuroanatomy slides along with Nieuwenhuys 2008 chapters 3 and 5.

• Videos: UBC Neuroanatomy Season 1, Brain Anatomy for Health Professionals Series

Download DSI-Studio

• Download DSI-Studio. Skim the document and play with the software. Data and tutorials can be found on DSI-Studio website.

• Download HCP1065.1mm.fib.gz.

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During practicum on Friday:

• Hands-on
  • Open HCP1065.1mm.fib.gz on DSI-Studio at [Step T3 Fiber Tracking]
  • Practice shortcuts

• Identify the following structure using T1W and FreeSurferDKT atlases at [Step T3a]
  • Fissures: longitudinal fissure and Sylvian fissure
  • Sulci: Lateral sulcus, precentral sulcus, central sulcus, and postcentral sulcus
  • Gyri: precentral gyrus and postcentral gyrus
  • Neocortex: frontal, parietal, temporal, occipital and insular
  • Forebrain: Thalamus, hypothalamus
  • Midbrain: substantia nigra, cerebral peduncles
  • Basal ganglia: caudate nucleus, globus pallidus, putamen, and substantia nigra
  • Limbic area: Hypothalamic nuclei, amygdala, hippocampus, thalamus, corpus callosum and cingulate gyrus
  • Cerebellum

Assignment:

Task 1: Neuroantomy test

Complete the neuroanatomy worksheet .

Task 2: Identify structure in DSI Studio

1. Load 100206.src.gz.gqi.1.7.fib.gz onto DSI-Studio.

2. Load 100206_T1w.nii.gz by clicking on “Insert Other Images” under Slices menu.

3. According to the video of “quick 3D manual segmentation of a brain tumor”, draw an ROI of left thalamus.

4. Open atlases, choose FreeSurferDKT subcortical atlas, and load left thalamus.

5. Compare your thalamus ROI to that of FreeSurferDKT subcortical atlas.