A set of functionally-defined brain regions with improved representation of the subcortex and cerebellum

Neuroimage. 2020 Feb 1:206:116290. doi: 10.1016/j.neuroimage.2019.116290. Epub 2019 Oct 18.


An important aspect of network-based analysis is robust node definition. This issue is critical for functional brain network analyses, as poor node choice can lead to spurious findings and misleading inferences about functional brain organization. Two sets of functional brain nodes from our group are well represented in the literature: (1) 264 volumetric regions of interest (ROIs) reported in Power et al., 2011, and (2) 333 cortical surface parcels reported in Gordon et al., 2016. However, subcortical and cerebellar structures are either incompletely captured or missing from these ROI sets. Therefore, properties of functional network organization involving the subcortex and cerebellum may be underappreciated thus far. Here, we apply a winner-take-all partitioning method to resting-state fMRI data to generate novel functionally-constrained ROIs in the thalamus, basal ganglia, amygdala, hippocampus, and cerebellum. We validate these ROIs in three datasets using several criteria, including agreement with existing literature and anatomical atlases. Further, we demonstrate that combining these ROIs with established cortical ROIs recapitulates and extends previously described functional network organization. This new set of ROIs is made publicly available for general use, including a full list of MNI coordinates and functional network labels.

Keywords: Cerebellum; Functional connectivity; Networks; Resting-state; Subcortical.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Adult
  • Amygdala / diagnostic imaging
  • Amygdala / physiology*
  • Basal Ganglia / diagnostic imaging
  • Basal Ganglia / physiology*
  • Brain Mapping* / methods
  • Cerebellum / diagnostic imaging
  • Cerebellum / physiology*
  • Cerebral Cortex / diagnostic imaging
  • Cerebral Cortex / physiology*
  • Hippocampus / diagnostic imaging
  • Hippocampus / physiology*
  • Humans
  • Magnetic Resonance Imaging
  • Nerve Net / diagnostic imaging
  • Nerve Net / physiology*
  • Thalamus / diagnostic imaging
  • Thalamus / physiology*