Trait: nontoxic goiter

Trait Information
Identifier MONDO_0001658
Description Sporadic enlargement of the thyroid gland that is not associated with changes in thyroid function or malignancy. [NCIT: P378]
Trait category
Other disease
Synonyms 9 synonyms
  • Nodule-thyroid, non tox
  • euthyroid goiter
  • euthyroid goitre
  • goiter, non-toxic
  • non-toxic goiter
  • non-toxic goitre
  • non-toxic simple goiter
  • non-toxic simple goitre
  • nontoxic goiter
Mapped terms 5 mapped terms
  • DOID:13195
  • MEDGEN:113172
  • NCIT:C35271
  • SCTID:267369002
  • UMLS:C0221777

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)
PGS000928
(GBE_HC644)
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Other non-toxic goitre (time-to-event) nontoxic goiter 170
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000928/ScoringFiles/PGS000928.txt.gz
PGS001814
(portability-PLR_241.2)
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Nontoxic multinodular goiter multinodular goiter,
nontoxic goiter		 322
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001814/ScoringFiles/PGS001814.txt.gz
PGS002022
(portability-ldpred2_241.2)
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Nontoxic multinodular goiter multinodular goiter,
nontoxic goiter		 375,470
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002022/ScoringFiles/PGS002022.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
PPM007467 PGS000928
(GBE_HC644)
 PSS004560|
African Ancestry|
6,497 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: TTE other non-toxic goitre — AUROC: 0.72128 [0.66829, 0.77427] R²: 0.0605
Incremental AUROC (full-covars): 0.01397
PGS R2 (no covariates): 0.01481
PGS AUROC (no covariates): 0.60656 [0.54212, 0.67101]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007468 PGS000928
(GBE_HC644)
 PSS004561|
East Asian Ancestry|
1,704 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: TTE other non-toxic goitre — AUROC: 0.6964 [0.60514, 0.78765] R²: 0.04766
Incremental AUROC (full-covars): 0.00791
PGS R2 (no covariates): 0.00213
PGS AUROC (no covariates): 0.559 [0.46259, 0.65542]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007469 PGS000928
(GBE_HC644)
 PSS004562|
European Ancestry|
24,905 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: TTE other non-toxic goitre — AUROC: 0.71135 [0.68228, 0.74042] R²: 0.0552
Incremental AUROC (full-covars): 0.0365
PGS R2 (no covariates): 0.01651
PGS AUROC (no covariates): 0.62112 [0.58564, 0.6566]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007470 PGS000928
(GBE_HC644)
 PSS004563|
South Asian Ancestry|
7,831 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: TTE other non-toxic goitre — AUROC: 0.77727 [0.73439, 0.82016] R²: 0.09335
Incremental AUROC (full-covars): 0.02392
PGS R2 (no covariates): 0.01984
PGS AUROC (no covariates): 0.62519 [0.56312, 0.68726]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007471 PGS000928
(GBE_HC644)
 PSS004564|
European Ancestry|
67,425 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: TTE other non-toxic goitre — AUROC: 0.72495 [0.70529, 0.74461] R²: 0.05905
Incremental AUROC (full-covars): 0.03129
PGS R2 (no covariates): 0.01271
PGS AUROC (no covariates): 0.60048 [0.57499, 0.62598]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM009413 PGS001814
(portability-PLR_241.2)
 PSS009058|
European Ancestry|
3,930 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Nontoxic multinodular goiter — — Partial Correlation (partial-r): 0.0146 [-0.0168, 0.0459] sex, age, birth date, deprivation index, 16 PCs —
PPM009414 PGS001814
(portability-PLR_241.2)
 PSS008612|
European Ancestry|
6,363 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Nontoxic multinodular goiter — — Partial Correlation (partial-r): 0.0205 [-0.0041, 0.0451] sex, age, birth date, deprivation index, 16 PCs —
PPM009415 PGS001814
(portability-PLR_241.2)
 PSS008388|
Greater Middle Eastern Ancestry|
1,140 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Nontoxic multinodular goiter — — Partial Correlation (partial-r): 0.0211 [-0.0375, 0.0796] sex, age, birth date, deprivation index, 16 PCs —
PPM009416 PGS001814
(portability-PLR_241.2)
 PSS008166|
South Asian Ancestry|
5,927 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Nontoxic multinodular goiter — — Partial Correlation (partial-r): 0.0654 [0.0399, 0.0907] sex, age, birth date, deprivation index, 16 PCs —
PPM009417 PGS001814
(portability-PLR_241.2)
 PSS007953|
East Asian Ancestry|
1,744 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Nontoxic multinodular goiter — — Partial Correlation (partial-r): 0.025 [-0.0222, 0.0722] sex, age, birth date, deprivation index, 16 PCs —
PPM009418 PGS001814
(portability-PLR_241.2)
 PSS007734|
African Ancestry|
2,378 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Nontoxic multinodular goiter — — Partial Correlation (partial-r): 0.0403 [0.0, 0.0806] sex, age, birth date, deprivation index, 16 PCs —
PPM009419 PGS001814
(portability-PLR_241.2)
 PSS008837|
African Ancestry|
3,830 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Nontoxic multinodular goiter — — Partial Correlation (partial-r): 0.0442 [0.0125, 0.0759] sex, age, birth date, deprivation index, 16 PCs —
PPM009412 PGS001814
(portability-PLR_241.2)
 PSS009284|
European Ancestry|
19,043 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Nontoxic multinodular goiter — — Partial Correlation (partial-r): 0.0277 [0.0135, 0.0419] sex, age, birth date, deprivation index, 16 PCs —
PPM011050 PGS002022
(portability-ldpred2_241.2)
 PSS009284|
European Ancestry|
19,043 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Nontoxic multinodular goiter — — Partial Correlation (partial-r): 0.024 [0.0098, 0.0382] sex, age, birth date, deprivation index, 16 PCs —
PPM011051 PGS002022
(portability-ldpred2_241.2)
 PSS009058|
European Ancestry|
3,930 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Nontoxic multinodular goiter — — Partial Correlation (partial-r): 0.0213 [-0.01, 0.0527] sex, age, birth date, deprivation index, 16 PCs —
PPM011052 PGS002022
(portability-ldpred2_241.2)
 PSS008612|
European Ancestry|
6,363 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Nontoxic multinodular goiter — — Partial Correlation (partial-r): 0.019 [-0.0056, 0.0436] sex, age, birth date, deprivation index, 16 PCs —
PPM011053 PGS002022
(portability-ldpred2_241.2)
 PSS008388|
Greater Middle Eastern Ancestry|
1,140 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Nontoxic multinodular goiter — — Partial Correlation (partial-r): 0.0214 [-0.0372, 0.0799] sex, age, birth date, deprivation index, 16 PCs —
PPM011054 PGS002022
(portability-ldpred2_241.2)
 PSS008166|
South Asian Ancestry|
5,927 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Nontoxic multinodular goiter — — Partial Correlation (partial-r): 0.0677 [0.0423, 0.0931] sex, age, birth date, deprivation index, 16 PCs —
PPM011055 PGS002022
(portability-ldpred2_241.2)
 PSS007953|
East Asian Ancestry|
1,744 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Nontoxic multinodular goiter — — Partial Correlation (partial-r): 0.0096 [-0.0376, 0.0568] sex, age, birth date, deprivation index, 16 PCs —
PPM011056 PGS002022
(portability-ldpred2_241.2)
 PSS007734|
African Ancestry|
2,378 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Nontoxic multinodular goiter — — Partial Correlation (partial-r): 0.0282 [-0.0122, 0.0685] sex, age, birth date, deprivation index, 16 PCs —
PPM011057 PGS002022
(portability-ldpred2_241.2)
 PSS008837|
African Ancestry|
3,830 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Nontoxic multinodular goiter — — Partial Correlation (partial-r): 0.0496 [0.0179, 0.0813] sex, age, birth date, deprivation index, 16 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
PSS008612 — — 6,363 individuals — European Italy (South Europe) UKB —
PSS008388 — — 1,140 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS008166 — — 5,927 individuals — South Asian India (South Asia) UKB —
PSS008837 — — 3,830 individuals — African unspecified Nigeria (West Africa) UKB —
PSS009284 — — 19,043 individuals — European UK (+ Ireland) UKB —
PSS007953 — — 1,744 individuals — East Asian China (East Asia) UKB —
PSS007734 — — 2,378 individuals — African American or Afro-Caribbean Carribean UKB —
PSS004560 — —
[
  • 84 cases
  • , 6,413 controls
]
 — African unspecified — UKB —
PSS004561 — —
[
  • 32 cases
  • , 1,672 controls
]
 — East Asian — UKB —
PSS004562 — —
[
  • 249 cases
  • , 24,656 controls
]
 — European non-white British ancestry UKB —
PSS004563 — —
[
  • 81 cases
  • , 7,750 controls
]
 — South Asian — UKB —
PSS004564 — —
[
  • 548 cases
  • , 66,877 controls
]
 — European white British ancestry UKB Testing cohort (heldout set)
PSS009058 — — 3,930 individuals — European Poland (NE Europe) UKB —