A Hybrid High-Resolution Anatomical MRI Atlas with Sub-parcellation of Cortical Gyri using Resting fMRI

Joshi, A. A.; Choi, S.; Chong, M.; Sonkar, G.; Gonzalez-Martinez, J.; Nair, D.; Wisnowski, J.; Haldar, J.; Shattuck, D.; Damasio, H.; Leahy, R. M.

doi:10.1101/2020.09.12.294322

bioRxiv · 10.1101/2020.09.12.294322

A Hybrid High-Resolution Anatomical MRI Atlas with Sub-parcellation of Cortical Gyri using Resting fMRI

Joshi, A. A.·Choi, S.·Chong, M.·Sonkar, G.·Gonzalez-Martinez, J.·Nair, D.·Wisnowski, J.·Haldar, J.·Shattuck, D.·Damasio, H.·Leahy, R. M.

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Abstract

We present a new high-quality, single-subject atlas with sub-millimeter voxel resolution, high SNR, and excellent grey-white tissue contrast to resolve fine anatomical details. The atlas is labeled into two parcellation schemes: 1) the anatomical BCI-DNI atlas, which is manually labeled based on known morphological and anatomical features, and 2) the hybrid USCBrain atlas, which incorporates functional information to guide the sub-parcellation of cerebral cortex. In both cases, we provide consistent volumetric and cortical surface-based parcellation and labeling. The intended use of the atlas is as a reference template for structural coregistration and labeling of individual brains. A single-subject T1-weighted image was acquired at a resolution of 0.547mm x 0.547mm x 0.800mm five times and averaged. Images were processed by an expert neuroanatomist using semi-automated methods in BrainSuite to extract the brain, classify tissue-types, and render anatomical surfaces. Sixty-six cortical and 29 noncortical regions were manually labeled to generate the BCI-DNI atlas. The cortical regions were further sub-parcellated into 130 cortical regions based on multi-subject connectivity analysis using resting fMRI (rfMRI) data from the Human Connectome Project (HCP) database to produce the USCBrain atlas. In addition, we provide a delineation between sulcal valleys and gyral crowns, which offer an additional set of 26 sulcal subregions per hemisphere. Lastly, a probabilistic map is provided to give users a quantitative measure of reliability for each gyral subdivision. Utility of the atlas was assessed by computing adjusted Rand indices between individual sub-parcellations obtained through structural-only coregistration to the USCBrain atlas and sub-parcellations obtained directly from each subjects resting fMRI data. Both atlas parcellations can be used with the BrainSuite, FreeSurfer, and FSL software packages.

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Joshi, A. A., Choi, S., Chong, M., Sonkar, G., Gonzalez-Martinez, J., Nair, D., Wisnowski, J., Haldar, J., Shattuck, D., Damasio, H., Leahy, R. M.. 2020-09-13. A Hybrid High-Resolution Anatomical MRI Atlas with Sub-parcellation of Cortical Gyri using Resting fMRI. https://doi.org/10.1101/2020.09.12.294322

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