1 BrainXcan results

In this analysis, we tested 327 structural and diffusion MRI-derived phenotypes with cross validated spearman correlation >= 0.101.

For the main analysis we focused on 261 IDPs, which include 48 cortical volumes, 10 sub-cortical volumes, 13 sub-cortical gray matter volumes. In below, we show the overall number of IDP by IDP subtype in the main results.

subtype n
Brainstem 1
FA 46
Gray-Brainstem 1
Gray-Cerebellum 27
Gray-Cortical 48
Gray-Subcortical 13
ICVF 44
ISOVF 13
OD 45
PC-Cerebellum-1 1
PC-Cortical-1 1
PC-FA-TBSS-1 1
PC-ICVF-TBSS-1 1
PC-ISOVF-TBSS-1 1
PC-OD-TBSS-1 1
PC-Subcortical_GMvol-1 1
PC-Subcortical_vol-1 1
Subcortical 10
Total 5

The p-value being used is .

Among 261 IDPs (109 T1 and 152 diffusion MRI, including the subtype-specific PCs), 3 were significantly associated with SCZ_PGC_2020 (FDR < \(0.05\)).

The top 20 associations for dMRI are

IDP subtype region side zscore qvalue IDP -> Phenotype Phenotype -> IDP link
PC-ICVF-TBSS-1 PC-ICVF-TBSS-1 PC-ICVF-TBSS-1 NA -3.525 0.0288 0.2746 0.003107 MR plot
PC-FA-TBSS-1 PC-FA-TBSS-1 PC-FA-TBSS-1 NA -3.285 0.04627 0.4324 0.009574 MR plot

The top 20 associations for T1 are

IDP subtype region side zscore qvalue IDP -> Phenotype Phenotype -> IDP link
IDP-25020 Subcortical hippocampus right 4.452 0.00116 0.5355 0.7077 MR plot

2 Visualization of associations in the brain

2.1 T1

2.2 dMRI

3 BrainXcan MR Figures

3.1 IDP-25098

Mean FA (fractional anisotropy) in superior fronto-occipital fasciculus (right) on FA skeleton (from dMRI data)

3.2 IDP-25359

Mean ICVF (intra-cellular volume fraction) in cerebral peduncle (left) on FA (fractional anisotropy) skeleton (from dMRI data)

3.3 IDP-25361

Mean ICVF (intra-cellular volume fraction) in anterior limb of internal capsule (left) on FA (fractional anisotropy) skeleton (from dMRI data)

3.4 IDP-25407

Mean OD (orientation dispersion index) in cerebral peduncle (left) on FA (fractional anisotropy) skeleton (from dMRI data)

3.5 IDP-25487

Mean ISOVF (isotropic or free water volume fraction) in tapetum (left) on FA (fractional anisotropy) skeleton (from dMRI data)

3.6 PC-FA-TBSS-1

PC-FA-TBSS-1

3.7 PC-ICVF-TBSS-1

PC-ICVF-TBSS-1

3.8 IDP-25004

Volume of ventricular cerebrospinal fluid (from T1 brain image)

3.9 IDP-25020

Volume of right hippocampus (from T1 brain image)

3.10 IDP-25838

Volume of grey matter in Left Cingulate Gyrus, anterior division

3.11 IDP-25847

Volume of grey matter in Right Frontal Orbital Cortex

3.12 IDP-25869

Volume of grey matter in Right Planum Polare