Genomics Superstruct Project

About the dataset

Primary description: Healthy brain variability and genomics

The Brain Genomics Superstruct Project (GSP) aims to examine the link between brain function, behavior, and genetic variation. Data collection included a saliva-based genomic data collection, structural and function MR imaging, and ongoing online assessments including demographics, health questionnaires, cognitive and behavioral assessment in 1,570 young and healthy participants.

Study Genomics Superstruct Project

Study Website GSP

Data Descriptor Paper https://www.nature.com/articles/sdata201531

DUA https://ida.loni.usc.edu/collaboration/access/appApply.jsp?project=GSP. If the link doesn't work, search Google for "GSP Data Use Agreement".
https://static1.squarespace.com/static/5b58b6da7106992fb15f7d50/t/5b9be03521c67c0e1c20948d/1583778429685/GSP_Restricted_Application.pdf

Country/Region USA

Disease Tag healthy_brain;aging

Age (mean ± SD)
(Baseline) 21.5 ± 2.9

Age Range
(Baseline) 18-35

% Female 57.6

CUBIC Project /cbica/projects/Public_Studies

PI for CUBIC Access Approval Christos Davatzikos

N Subjects 1570

N MR Sessions 1639

Diagnoses

Value	V01
CN	1570

DLMUSE (v1.0.7)
(1639/1639 complete)

/cbica/projects/Public_Studies/GSP/Pipelines/GSP_DLMUSE_2025/Results/DLMUSE_Volumes.csv

RAVENS (DRAMMS-1.4.1)
(1639/1639 complete)

/cbica/projects/Public_Studies/GSP/Pipelines/GSP_3D_DLICV_MASK_2023/Protocols/RAVENS

fMRIPrep (23.1.3)
(1570/1639 complete)

/cbica/projects/Public_Studies/GSP/Pipelines/GSP_fMRI_2025/Protocols

/opt/conda/envs/fmriprep/bin/fmriprep \
  /cbica/projects/Public_Studies/GSP/Pipelines/GSP_fMRI_2025/Data/b00 \
  /cbica/projects/Public_Studies/GSP/Pipelines/GSP_fMRI_2025/Protocols/b00 \
  participant \
  --participant_label 0001 \
  --fs-license-file /cbica/projects/Public_Studies/GSP/Pipelines/GSP_fMRI_2025/license.txt \
  --fs-no-reconall \
  --output-spaces MNI152NLin2009cAsym:res-2 \
  --debug all

XCP-D (0.7.1rc6)
(1482/1639 complete)

/cbica/projects/Public_Studies/GSP/Pipelines/GSP_fMRI_2025/Protocols/XCP

/usr/local/miniconda/bin/xcp_d \
  /cbica/projects/Public_Studies/GSP/Pipelines/GSP_fMRI_2025/Protocols/b00 \
  /cbica/projects/Public_Studies/GSP/Pipelines/GSP_fMRI_2025/Protocols/XCP/b00 \
  participant \
  --participant_label 0001 \
  --input-type fmriprep \
  -p 36P \
  --work-dir /cbica/comp_space/Public_Studies \
  --motion-filter-type lp \
  --band-stop-min 6 \
  --motion-filter-order 4 \
  --despike \
  --fd-thresh 0 \
  --lower-bpf 0.01 \
  --upper-bpf 0.08 \
  --bpf-order 2 \
  --head-radius auto \
  --dummy-scans auto \
  --min-coverage 0.5 \
  --smoothing 0 \
  --fs-license-file /cbica/projects/Public_Studies/GSP/Pipelines/GSP_fMRI_2025/license.txt

Non-Imaging Data

/cbica/projects/ISTAGING/Pipelines/ClinicalDataConsolidation_201911/Data/External_Data/GSP

Raw data downloaded from source.

/cbica/projects/ISTAGING/Pipelines/ISTAGING_Data_Consolidation_2020/v2.0/istaging.csv

Data consolidated and harmonized in 2020.

This study: subset with df[df.Study == 'GSP']

README: /cbica/projects/ISTAGING/Pipelines/ISTAGING_Data_Consolidation_2020/v2.0/README.md

Release Notes: /cbica/projects/ISTAGING/Pipelines/ISTAGING_Data_Consolidation_2020/v2.0/Release_Notes.md

/cbica/home/harmang/for_others/final_combined_istaging_withMUSE.csv

Data consolidated and harmonized in 2026.

This study: subset with df[df.Study == 'GSP']

Funding
Shared Instrumentation Grants 1S10RR023043 and 1S10RR023401 and was supported by funding from the Simons Foundation (RLB), the Howard Hughes Medical Institute (RLB), NIMH grants R01-MH079799 (JWS), K24MH094614 (JWS), K01MH099232 (AJH), and the Massachusetts General Hospital-University of Southern California Human Connectome Project (U54MH091665)