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 Scoring File (FTP Link)
PGS001130
(GBE_INI2887)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
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. medRxiv (2021)
|Pre
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

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
PPM007089 PGS001515
(GBE_INI3456)
PSS007250|
European Ancestry|
4,562 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) : 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
PPM007088 PGS001515
(GBE_INI3456)
PSS007249|
South Asian Ancestry|
411 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) : 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
PPM007087 PGS001515
(GBE_INI3456)
PSS007248|
European Ancestry|
2,329 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) : 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
PPM007086 PGS001515
(GBE_INI3456)
PSS007247|
East Asian Ancestry|
86 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) : 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
PPM007085 PGS001515
(GBE_INI3456)
PSS007246|
African Ancestry|
438 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) : 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
PPM008382 PGS001130
(GBE_INI2887)
PSS006875|
European Ancestry|
15,927 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: # of cigarettes previously smoked daily : 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
PPM008381 PGS001130
(GBE_INI2887)
PSS006874|
South Asian Ancestry|
585 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: # of cigarettes previously smoked daily : 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
PPM008380 PGS001130
(GBE_INI2887)
PSS006873|
European Ancestry|
6,735 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: # of cigarettes previously smoked daily : 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
PPM008379 PGS001130
(GBE_INI2887)
PSS006872|
East Asian Ancestry|
122 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: # of cigarettes previously smoked daily : 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
PPM008378 PGS001130
(GBE_INI2887)
PSS006871|
African Ancestry|
553 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: # of cigarettes previously smoked daily : 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

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
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)