PGS Publication: PGP000164

Publication Information (EuropePMC)
Title Genetic variation associated with thyroid autoimmunity shapes the systemic immune response to PD-1 checkpoint blockade.
PubMed ID 34099659(Europe PMC)
doi 10.1038/s41467-021-23661-4
Publication Date June 7, 2021
Journal Nat Commun
Author(s) Khan Z, Hammer C, Carroll J, Di Nucci F, Acosta SL, Maiya V, Bhangale T, Hunkapiller J, Mellman I, A... lbert ML, McCarthy MI, Chandler GS.Show more
Released in PGS Catalog: June 11, 2021

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:
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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

PGS Developed By This Publication

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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)
PGS000759
(hypoT)
PGP000164 |
Khan Z et al. Nat Commun (2021)
Hypothyroidismhypothyroidism140
-
D
E
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000759/ScoringFiles/PGS000759.txt.gz
PGS000760
(VIT)
PGP000164 |
Khan Z et al. Nat Commun (2021)
VitiligoVitiligo42
G
D
E
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000760/ScoringFiles/PGS000760.txt.gz
PGS000761
(LDpred2_hypoT_PRS)
PGP000164 |
Khan Z et al. Nat Commun (2021)
Hypothyroidismhypothyroidism1,099,649
-
D
E
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000761/ScoringFiles/PGS000761.txt.gz
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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.

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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
PPM001934PGS000759
(hypoT)
PSS000970|
European Ancestry|
1,584 individuals
PGP000164 |
Khan Z et al. Nat Commun (2021)
Reported Trait: anti-PD-L1 induced hypothyroidism in cancer patientsHR: 1.52 [1.31, 1.74]—meta-analysis p-value: 7.52e-095 genotype PCs—
PPM001935PGS000760
(VIT)
PSS000970|
European Ancestry|
1,584 individuals
PGP000164 |
Khan Z et al. Nat Commun (2021)
Reported Trait: anti-PD-L1 induced hypothyroidism in cancer patientsHR: 1.41 [1.22, 1.61]—meta-analysis p-value: 1.10e-065 genotype PCs—
PPM001936PGS000761
(LDpred2_hypoT_PRS)
PSS000970|
European Ancestry|
1,584 individuals
PGP000164 |
Khan Z et al. Nat Commun (2021)
Reported Trait: anti-PD-L1 induced hypothyroidism in cancer patientsHR: 1.49 [1.3, 1.71]—meta-analysis p-value: 5.49e-095 genotype PCs—
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Evaluated Samples

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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
PSS000970—Median = 400.0 days1,584 individuals—European—GNEHGI2020Q2—
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