PGS Publication: PGP000084

Publication Information (EuropePMC)
Title Using polygenic scores for identifying individuals at increased risk of substance use disorders in clinical and population samples.
PubMed ID 32555147(Europe PMC)
doi 10.1038/s41398-020-00865-8
Publication Date June 18, 2020
Journal Transl Psychiatry
Author(s) Barr PB, Ksinan A, Su J, Johnson EC, Meyers JL, Wetherill L, Latvala A, Aliev F, Chan G, Kuperman S,...  Nurnberger J, Kamarajan C, Anokhin A, Agrawal A, Rose RJ, Edenberg HJ, Schuckit M, Kaprio J, Dick DM.Show more
Released in PGS Catalog: July 1, 2020

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

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)
PGS000201
(PROB_ALC_COGA)
PGP000084 |
Barr PB et al. Transl Psychiatry (2020)
Problematic alcohol usealcohol dependence measurement1,094,954
G
-
E
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000201/ScoringFiles/PGS000201.txt.gz
PGS000202
(PROB_ALC_FT12)
PGP000084 |
Barr PB et al. Transl Psychiatry (2020)
Problematic alcohol usealcohol dependence measurement1,083,002
G
-
E
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000202/ScoringFiles/PGS000202.txt.gz
PGS000203
(GSCAN_DPW_COGA)
PGP000084 |
Barr PB et al. Transl Psychiatry (2020)
Alcohol consumption (drinks per week)alcohol consumption quality1,110,910
G
-
E
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000203/ScoringFiles/PGS000203.txt.gz
PGS000204
(GSCAN_DPW_FT12)
PGP000084 |
Barr PB et al. Transl Psychiatry (2020)
Alcohol consumption (drinks per week)alcohol consumption quality1,099,480
G
-
E
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000204/ScoringFiles/PGS000204.txt.gz
PGS000205
(RISK_PC_COGA)
PGP000084 |
Barr PB et al. Transl Psychiatry (2020)
Risk-taking tendency (4-domain principal component model)risk-taking behaviour1,110,737
G
-
E
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000205/ScoringFiles/PGS000205.txt.gz
PGS000206
(RISK_PC_FT12)
PGP000084 |
Barr PB et al. Transl Psychiatry (2020)
Risk-taking tendency (4-domain principal component model)risk-taking behaviour1,098,765
G
-
E
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000206/ScoringFiles/PGS000206.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
PPM000625PGS000203
(GSCAN_DPW_COGA)
PSS000339|
European Ancestry|
7,599 individuals
PGP000084 |
Barr PB et al. Transl Psychiatry (2020)
Reported Trait: Alcohol use disorder (DSM-5 criteria count, log-transformed)β: 0.121 (0.01)—ΔR-squared (vs. covariates alone): 0.01734sex, age of last observation, 10 Genetic PCs, genotyping array, data collection site—
PPM000626PGS000201
(PROB_ALC_COGA)
PSS000339|
European Ancestry|
7,599 individuals
PGP000084 |
Barr PB et al. Transl Psychiatry (2020)
Reported Trait: Alcohol use disorder (DSM-5 criteria count, log-transformed)β: 0.099 (0.01)—ΔR-squared (vs. covariates alone): 0.01192sex, age of last observation, 10 Genetic PCs, genotyping array, data collection site—
PPM000627PGS000205
(RISK_PC_COGA)
PSS000339|
European Ancestry|
7,599 individuals
PGP000084 |
Barr PB et al. Transl Psychiatry (2020)
Reported Trait: Alcohol use disorder (DSM-5 criteria count, log-transformed)β: 0.117 (0.011)—ΔR-squared (vs. covariates alone): 0.01613sex, age of last observation, 10 Genetic PCs, genotyping array, data collection site—
PPM000628PGS000204
(GSCAN_DPW_FT12)
PSS000340|
European Ancestry|
1,251 individuals
PGP000084 |
Barr PB et al. Transl Psychiatry (2020)
Reported Trait: Alcohol use disorder (DSM-5 criteria count, log-transformed)β: 0.114 (0.019)—ΔR-squared (vs. covariates alone): 0.0298sex, age of last observation, 10 Genetic PCs—
PPM000629PGS000202
(PROB_ALC_FT12)
PSS000340|
European Ancestry|
1,251 individuals
PGP000084 |
Barr PB et al. Transl Psychiatry (2020)
Reported Trait: Alcohol use disorder (DSM-5 criteria count, log-transformed)β: 0.043 (0.019)—ΔR-squared (vs. covariates alone): 0.00456sex, age of last observation, 10 Genetic PCs—
PPM000630PGS000206
(RISK_PC_FT12)
PSS000340|
European Ancestry|
1,251 individuals
PGP000084 |
Barr PB et al. Transl Psychiatry (2020)
Reported Trait: Alcohol use disorder (DSM-5 criteria count, log-transformed)β: 0.1 (0.02)—ΔR-squared (vs. covariates alone): 0.02273sex, age of last observation, 10 Genetic 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
PSS000339——7,599 individuals,
47.16 % Male samples
Mean = 36.94 years
Sd = 14.77 years
Range = [12.0, 91.0] years		European—COGA—
PSS000340——1,251 individuals,
45.6 % Male samples
Mean = 21.9 years
Sd = 0.77 years
Range = [21.0, 26.0] years		European
(Finnish)		—FinnTwin12Twin Study
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