Trait: cigarettes per day measurement

Experimental Factor Ontology (EFO) Information
Identifier EFO_0006525
Description the quantification of the number of cigarettes that a subject smoked on average per day
Trait category
Other measurement
Synonym CPD 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)
PGS001130
(GBE_INI2887)
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Number of cigarettes previously smoked per day cigarettes per day measurement 725
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001130/ScoringFiles/PGS001130.txt.gz
PGS001515
(GBE_INI3456)
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Number of cigarettes currently smoked daily (current cigarette smokers) cigarettes per day measurement 9
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001515/ScoringFiles/PGS001515.txt.gz
PGS003365
(GSCAN_CigDay_2022_PRS_WEIGHTS_AFR)
 PGP000410 |
Saunders GRB et al. Nature (2022)
 Cigarettes smoked per day cigarettes per day measurement 1,196,168
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003365/ScoringFiles/PGS003365.txt.gz
PGS003366
(GSCAN_CigDay_2022_PRS_WEIGHTS_AMR)
 PGP000410 |
Saunders GRB et al. Nature (2022)
 Cigarettes smoked per day cigarettes per day measurement 1,112,206
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003366/ScoringFiles/PGS003366.txt.gz
PGS003367
(GSCAN_CigDay_2022_PRS_WEIGHTS_EAS)
 PGP000410 |
Saunders GRB et al. Nature (2022)
 Cigarettes smoked per day cigarettes per day measurement 858,414
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003367/ScoringFiles/PGS003367.txt.gz
PGS003368
(GSCAN_CigDay_2022_PRS_WEIGHTS_EUR)
 PGP000410 |
Saunders GRB et al. Nature (2022)
 Cigarettes smoked per day cigarettes per day measurement 1,055,811
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003368/ScoringFiles/PGS003368.txt.gz
PGS003748
(GRS46_CPD)
 PGP000471 |
Tran JH et al. Transl Vis Sci Technol (2023)
 Cigarettes smoked per day cigarettes per day measurement 46
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003748/ScoringFiles/PGS003748.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
PPM008378 PGS001130
(GBE_INI2887)
 PSS006871|
African Ancestry|
553 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: # of cigarettes previously smoked daily — — R²: 0.05257 [0.04201, 0.06313]
Incremental R2 (full-covars): -0.00029
PGS R2 (no covariates): 0.00089 [-0.00056, 0.00234]		 age, sex, UKB array type, Genotype PCs —
PPM008379 PGS001130
(GBE_INI2887)
 PSS006872|
East Asian Ancestry|
122 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: # of cigarettes previously smoked daily — — R²: 0.20745 [0.17324, 0.24166]
Incremental R2 (full-covars): -0.00582
PGS R2 (no covariates): 0.00074 [-0.00184, 0.00332]		 age, sex, UKB array type, Genotype PCs —
PPM008380 PGS001130
(GBE_INI2887)
 PSS006873|
European Ancestry|
6,735 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: # of cigarettes previously smoked daily — — R²: 0.10992 [0.10259, 0.11725]
Incremental R2 (full-covars): 0.00885
PGS R2 (no covariates): 0.00973 [0.0073, 0.01215]		 age, sex, UKB array type, Genotype PCs —
PPM008381 PGS001130
(GBE_INI2887)
 PSS006874|
South Asian Ancestry|
585 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: # of cigarettes previously smoked daily — — R²: 0.0678 [0.05705, 0.07855]
Incremental R2 (full-covars): -0.00447
PGS R2 (no covariates): 0.00066 [-0.00048, 0.0018]		 age, sex, UKB array type, Genotype PCs —
PPM008382 PGS001130
(GBE_INI2887)
 PSS006875|
European Ancestry|
15,927 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: # of cigarettes previously smoked daily — — R²: 0.0979 [0.09364, 0.10216]
Incremental R2 (full-covars): 0.0054
PGS R2 (no covariates): 0.00613 [0.00496, 0.00731]		 age, sex, UKB array type, Genotype PCs —
PPM007085 PGS001515
(GBE_INI3456)
 PSS007246|
African Ancestry|
438 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) — — R²: 0.01822 [0.01178, 0.02466]
Incremental R2 (full-covars): -0.00395
PGS R2 (no covariates): 0.00404 [0.00097, 0.00712]		 age, sex, UKB array type, Genotype PCs —
PPM007086 PGS001515
(GBE_INI3456)
 PSS007247|
East Asian Ancestry|
86 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) — — R²: 0.1229 [0.09376, 0.15204]
Incremental R2 (full-covars): 0.00955
PGS R2 (no covariates): 0.02937 [0.01361, 0.04513]		 age, sex, UKB array type, Genotype PCs —
PPM007087 PGS001515
(GBE_INI3456)
 PSS007248|
European Ancestry|
2,329 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) — — R²: 0.09619 [0.08923, 0.10315]
Incremental R2 (full-covars): 0.00371
PGS R2 (no covariates): 0.00361 [0.00212, 0.0051]		 age, sex, UKB array type, Genotype PCs —
PPM007088 PGS001515
(GBE_INI3456)
 PSS007249|
South Asian Ancestry|
411 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) — — R²: 0.04868 [0.03939, 0.05797]
Incremental R2 (full-covars): 0.01303
PGS R2 (no covariates): 0.01795 [0.01212, 0.02377]		 age, sex, UKB array type, Genotype PCs —
PPM007089 PGS001515
(GBE_INI3456)
 PSS007250|
European Ancestry|
4,562 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) — — R²: 0.07868 [0.07478, 0.08258]
Incremental R2 (full-covars): 0.00371
PGS R2 (no covariates): 0.00532 [0.00423, 0.00642]		 age, sex, UKB array type, Genotype PCs —
PPM016221 PGS003365
(GSCAN_CigDay_2022_PRS_WEIGHTS_AFR)
 PSS010064|
African Ancestry|
2,199 individuals
 PGP000410 |
Saunders GRB et al. Nature (2022)
 Reported Trait: Cigarettes smoked per day β: 0.016 (0.042) — ∆ R^2: 0.00022 — —
PPM016222 PGS003366
(GSCAN_CigDay_2022_PRS_WEIGHTS_AMR)
 PSS010061|
Hispanic or Latin American Ancestry|
1,132 individuals
 PGP000410 |
Saunders GRB et al. Nature (2022)
 Reported Trait: Cigarettes smoked per day β: 0.111 (0.05) — ∆ R^2: 0.012 — —
PPM016223 PGS003367
(GSCAN_CigDay_2022_PRS_WEIGHTS_EAS)
 PSS010062|
East Asian Ancestry|
525 individuals
 PGP000410 |
Saunders GRB et al. Nature (2022)
 Reported Trait: Cigarettes smoked per day β: -0.028 (0.091) — ∆ R^2: 0.001 — —
PPM016224 PGS003368
(GSCAN_CigDay_2022_PRS_WEIGHTS_EUR)
 PSS010063|
European Ancestry|
6,092 individuals
 PGP000410 |
Saunders GRB et al. Nature (2022)
 Reported Trait: Cigarettes smoked per day β: 0.217 (0.02) — ∆ R^2: 0.045 — —
PPM018505 PGS003748
(GRS46_CPD)
 PSS010997|
Ancestry Not Reported|
14,921 individuals
 PGP000471 |
Tran JH et al. Transl Vis Sci Technol (2023)
 Reported Trait: Cigarettes per day OR: 0.68 [0.43, 0.93] — — — —

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
PSS010997 — — 14,921 individuals,
40.9 % Male samples
 Mean = 66.1 years Not reported — RS —
PSS010061 — — 1,132 individuals — Hispanic or Latin American — Add Health —
PSS010062 — — 525 individuals — East Asian — Add Health —
PSS010063 — — 6,092 individuals — European — Add Health —
PSS010064 — — 2,199 individuals — African unspecified — Add Health —
PSS007246 — — 438 individuals — African unspecified — UKB —
PSS007247 — — 86 individuals — East Asian — UKB —
PSS007248 — — 2,329 individuals — European non-white British ancestry UKB —
PSS007249 — — 411 individuals — South Asian — UKB —
PSS007250 — — 4,562 individuals — European white British ancestry UKB Testing cohort (heldout set)
PSS006871 — — 553 individuals — African unspecified — UKB —
PSS006872 — — 122 individuals — East Asian — UKB —
PSS006873 — — 6,735 individuals — European non-white British ancestry UKB —
PSS006874 — — 585 individuals — South Asian — UKB —
PSS006875 — — 15,927 individuals — European white British ancestry UKB Testing cohort (heldout set)