Trait: thalamus volume

Experimental Factor Ontology (EFO) Information
Identifier EFO_0006935
Description quantification of the volume of the thalamus, a midline symmetrical structure of two halves, within the vertebrate brain, situated between the cerebral cortex and the midbrain
Trait category
Other measurement

Associated Polygenic Score(s)

Filter PGS by Participant Ancestry
Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
Display options:
Ancestry legend
Multi-ancestry (including European)
Multi-ancestry (excluding European)
African
East Asian
South Asian
Additional Asian Ancestries
European
Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported
Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution
GWAS
Dev
Eval
 Scoring File (FTP Link)
PGS001637
(GBE_INI25011)
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Volume of thalamus (L) neuroimaging measurement,
thalamus volume		 1,328
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001637/ScoringFiles/PGS001637.txt.gz
PGS001638
(GBE_INI25012)
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Volume of thalamus (R) neuroimaging measurement,
thalamus volume		 1,792
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001638/ScoringFiles/PGS001638.txt.gz

Performance Metrics

Disclaimer: The performance metrics are displayed as reported by the source studies. It is important to note that metrics are not necessarily comparable with each other. For example, metrics depend on the sample characteristics (described by the PGS Catalog Sample Set [PSS] ID), phenotyping, and statistical modelling. Please refer to the source publication for additional guidance on performance.

PGS Performance
Metric ID (PPM) 		Evaluated Score PGS Sample Set ID
(PSS) 		Performance Source Trait PGS Effect Sizes
(per SD change) 		Classification Metrics Other Metrics Covariates Included in the Model PGS Performance:
Other Relevant Information
PPM005400 PGS001637
(GBE_INI25011)
 PSS005236|
African Ancestry|
200 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Vol. of thalamus (L) — — R²: 0.30406 [0.2854, 0.32271]
Incremental R2 (full-covars): -0.02379
PGS R2 (no covariates): 0.01279 [0.00737, 0.01822]		 age, sex, UKB array type, Genotype PCs —
PPM005401 PGS001637
(GBE_INI25011)
 PSS005237|
East Asian Ancestry|
113 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Vol. of thalamus (L) — — R²: 0.29336 [0.25709, 0.32963]
Incremental R2 (full-covars): 0.01865
PGS R2 (no covariates): 0.02929 [0.01355, 0.04504]		 age, sex, UKB array type, Genotype PCs —
PPM005402 PGS001637
(GBE_INI25011)
 PSS005238|
European Ancestry|
1,739 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Vol. of thalamus (L) — — R²: 0.35279 [0.34325, 0.36234]
Incremental R2 (full-covars): 0.01922
PGS R2 (no covariates): 0.02418 [0.02041, 0.02795]		 age, sex, UKB array type, Genotype PCs —
PPM005403 PGS001637
(GBE_INI25011)
 PSS005239|
South Asian Ancestry|
328 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Vol. of thalamus (L) — — R²: 0.37965 [0.36272, 0.39657]
Incremental R2 (full-covars): 0.00965
PGS R2 (no covariates): 0.00572 [0.00239, 0.00905]		 age, sex, UKB array type, Genotype PCs —
PPM005404 PGS001637
(GBE_INI25011)
 PSS005240|
European Ancestry|
5,443 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Vol. of thalamus (L) — — R²: 0.29342 [0.28764, 0.29919]
Incremental R2 (full-covars): 0.02261
PGS R2 (no covariates): 0.0246 [0.02229, 0.02691]		 age, sex, UKB array type, Genotype PCs —
PPM005405 PGS001638
(GBE_INI25012)
 PSS005241|
African Ancestry|
200 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Vol. of thalamus (R) — — R²: 0.29788 [0.27926, 0.31651]
Incremental R2 (full-covars): -0.0213
PGS R2 (no covariates): 0.00832 [0.00392, 0.01271]		 age, sex, UKB array type, Genotype PCs —
PPM005406 PGS001638
(GBE_INI25012)
 PSS005242|
East Asian Ancestry|
113 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Vol. of thalamus (R) — — R²: 0.28598 [0.24979, 0.32216]
Incremental R2 (full-covars): 0.00325
PGS R2 (no covariates): 0.01445 [0.00322, 0.02567]		 age, sex, UKB array type, Genotype PCs —
PPM005407 PGS001638
(GBE_INI25012)
 PSS005243|
European Ancestry|
1,739 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Vol. of thalamus (R) — — R²: 0.36351 [0.35397, 0.37304]
Incremental R2 (full-covars): 0.01877
PGS R2 (no covariates): 0.02416 [0.02039, 0.02793]		 age, sex, UKB array type, Genotype PCs —
PPM005408 PGS001638
(GBE_INI25012)
 PSS005244|
South Asian Ancestry|
328 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Vol. of thalamus (R) — — R²: 0.40018 [0.38338, 0.41698]
Incremental R2 (full-covars): 0.00859
PGS R2 (no covariates): 0.00576 [0.00242, 0.0091]		 age, sex, UKB array type, Genotype PCs —
PPM005409 PGS001638
(GBE_INI25012)
 PSS005245|
European Ancestry|
5,443 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Vol. of thalamus (R) — — R²: 0.30158 [0.29579, 0.30737]
Incremental R2 (full-covars): 0.02093
PGS R2 (no covariates): 0.02391 [0.02163, 0.02619]		 age, sex, UKB array type, Genotype PCs —

Evaluated Samples

PGS Sample Set ID
(PSS) 		Phenotype Definitions and Methods Participant Follow-up Time Sample Numbers Age of Study Participants Sample Ancestry Additional Ancestry Description Cohort(s) Additional Sample/Cohort Information
PSS005244 — — 328 individuals — South Asian — UKB —
PSS005245 — — 5,443 individuals — European white British ancestry UKB Testing cohort (heldout set)
PSS005236 — — 200 individuals — African unspecified — UKB —
PSS005237 — — 113 individuals — East Asian — UKB —
PSS005238 — — 1,739 individuals — European non-white British ancestry UKB —
PSS005239 — — 328 individuals — South Asian — UKB —
PSS005240 — — 5,443 individuals — European white British ancestry UKB Testing cohort (heldout set)
PSS005241 — — 200 individuals — African unspecified — UKB —
PSS005242 — — 113 individuals — East Asian — UKB —
PSS005243 — — 1,739 individuals — European non-white British ancestry UKB —