Individualized Subcortical Parcellations/Segementations?

[kianal...@gmail.com]

Hello CBIG Team,

We are using the MS-HBM pipeline from Kong et al. (2022) to generate 400 subject-specific cortical parcels from CBIG2016_preproc outputs.

We would like to do something analogous for subcortical regions (e.g., thalamus, striatum, cerebellum). We are aware that there are several group-level functional subcortical parcellations (e.g., Tian et al. for thalamus/striatum, Buckner/Yeo network maps for cerebellum), but these appear to be group-consensus solutions rather than individualized.

Is there an existing CBIG workflow, extension, or recommended approach for generating individualized functional parcellations of subcortical structures, or are the available subcortical atlases intended to remain group-level when used alongside MS-HBM cortical parcellations?

Any guidance would be appreciated. Thank you! 
Kiana

[Thomas Yeo]

Hi Kiana,

Our typical approach is something like this: https://journals.physiology.org/doi/full/10.1152/jn.00561.2020

You can take a look at the section "Individual-Specific Cerebellar Parcellation".

Regards,

Thomas

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[kianal...@gmail.com]

Hello Thomas,

Thank you for the helpful recommendation! I have a brief follow-up question. For the functional connectivity analysis you suggested (between subcortical voxels and cortical vertices), what is the preferred way to generate or apply a subcortical mask that is appropriately aligned with the preprocessed functional data? I’d like to include all subcortical voxels, rather than a single structure (e.g., thalamus or striatum). Is there an existing CBIG mask you typically use, or a standard approach you recommend for generating one?

Thank you again! Sincerely,

Kiana