Trait: physical activity measurement

Experimental Factor Ontology (EFO) Information
Identifier EFO_0008002
Description quantification of some aspect of physical activity such as frequency or intensity
Trait category
Other 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)
PGS001073
(GBE_INI874)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Duration of walks physical activity measurement 1,323
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001073/ScoringFiles/PGS001073.txt.gz
PGS001074
(GBE_BIN_FC30006164)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Types of physical activity in last 4 weeks (other exercises) physical activity measurement 3,846
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001074/ScoringFiles/PGS001074.txt.gz
PGS001075
(GBE_INI924)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Usual walking pace physical activity measurement 7,535
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001075/ScoringFiles/PGS001075.txt.gz
PGS001397
(GBE_INI971)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Frequency of walking for pleasure in last 4 weeks physical activity measurement 1,276
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001397/ScoringFiles/PGS001397.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
PPM008123 PGS001073
(GBE_INI874)
PSS007481|
African Ancestry|
5,343 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Duration of walks : 0.00426 [0.0011, 0.00741]
Incremental R2 (full-covars): 0.0008
PGS R2 (no covariates): 0.00083 [-0.00057, 0.00222]
age, sex, UKB array type, Genotype PCs
PPM008124 PGS001073
(GBE_INI874)
PSS007482|
East Asian Ancestry|
1,441 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Duration of walks : 0.01101 [0.00118, 0.02084]
Incremental R2 (full-covars): 0.00099
PGS R2 (no covariates): 0.00149 [-0.00216, 0.00515]
age, sex, UKB array type, Genotype PCs
PPM008125 PGS001073
(GBE_INI874)
PSS007483|
European Ancestry|
22,129 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Duration of walks : 0.01036 [0.00786, 0.01287]
Incremental R2 (full-covars): 0.00144
PGS R2 (no covariates): 0.00174 [0.0007, 0.00277]
age, sex, UKB array type, Genotype PCs
PPM008126 PGS001073
(GBE_INI874)
PSS007484|
South Asian Ancestry|
6,613 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Duration of walks : 0.00724 [0.0035, 0.01099]
Incremental R2 (full-covars): 0.00071
PGS R2 (no covariates): 0.00148 [-0.00022, 0.00318]
age, sex, UKB array type, Genotype PCs
PPM008127 PGS001073
(GBE_INI874)
PSS007485|
European Ancestry|
58,299 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Duration of walks : 0.00463 [0.00361, 0.00565]
Incremental R2 (full-covars): 0.00051
PGS R2 (no covariates): 0.00069 [0.00029, 0.00109]
age, sex, UKB array type, Genotype PCs
PPM008128 PGS001074
(GBE_BIN_FC30006164)
PSS003889|
African Ancestry|
3,437 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Types of physical activity in last 4 weeks (other exercises) AUROC: 0.58685 [0.56691, 0.60678] : 0.02734
Incremental AUROC (full-covars): -0.01455
PGS R2 (no covariates): 0.00052
PGS AUROC (no covariates): 0.51078 [0.49041, 0.53114]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008129 PGS001074
(GBE_BIN_FC30006164)
PSS003890|
East Asian Ancestry|
925 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Types of physical activity in last 4 weeks (other exercises) AUROC: 0.53885 [0.4931, 0.58459] : 0.01025
Incremental AUROC (full-covars): -0.02118
PGS R2 (no covariates): 0.00013
PGS AUROC (no covariates): 0.49787 [0.45183, 0.54391]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008130 PGS001074
(GBE_BIN_FC30006164)
PSS003891|
European Ancestry|
14,151 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Types of physical activity in last 4 weeks (other exercises) AUROC: 0.62614 [0.61244, 0.63984] : 0.04034
Incremental AUROC (full-covars): 0.00763
PGS R2 (no covariates): 0.0082
PGS AUROC (no covariates): 0.5561 [0.54163, 0.57057]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008131 PGS001074
(GBE_BIN_FC30006164)
PSS003892|
South Asian Ancestry|
3,751 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Types of physical activity in last 4 weeks (other exercises) AUROC: 0.56075 [0.54088, 0.58063] : 0.01505
Incremental AUROC (full-covars): -0.00611
PGS R2 (no covariates): 0.00193
PGS AUROC (no covariates): 0.52395 [0.50376, 0.54414]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008132 PGS001074
(GBE_BIN_FC30006164)
PSS003893|
European Ancestry|
37,995 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Types of physical activity in last 4 weeks (other exercises) AUROC: 0.59585 [0.58652, 0.60518] : 0.0232
Incremental AUROC (full-covars): 0.00711
PGS R2 (no covariates): 0.0069
PGS AUROC (no covariates): 0.55343 [0.54397, 0.56289]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008133 PGS001075
(GBE_INI924)
PSS007491|
African Ancestry|
6,309 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Usual walking pace : 0.02106 [0.01415, 0.02796]
Incremental R2 (full-covars): -0.00129
PGS R2 (no covariates): 0.00166 [-0.00032, 0.00363]
age, sex, UKB array type, Genotype PCs
PPM008134 PGS001075
(GBE_INI924)
PSS007492|
East Asian Ancestry|
1,628 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Usual walking pace : 0.01729 [0.00505, 0.02954]
Incremental R2 (full-covars): -0.00194
PGS R2 (no covariates): 0.00179 [-0.00221, 0.00578]
age, sex, UKB array type, Genotype PCs
PPM008135 PGS001075
(GBE_INI924)
PSS007493|
European Ancestry|
24,676 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Usual walking pace : 0.04293 [0.038, 0.04785]
Incremental R2 (full-covars): 0.00907
PGS R2 (no covariates): 0.01048 [0.00796, 0.01299]
age, sex, UKB array type, Genotype PCs
PPM008136 PGS001075
(GBE_INI924)
PSS007494|
South Asian Ancestry|
7,430 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Usual walking pace Incremental R2 (full-covars): 0.00199
: 0.02131 [0.01498, 0.02763]
PGS R2 (no covariates): 0.00337 [0.00081, 0.00594]
age, sex, UKB array type, Genotype PCs
PPM008137 PGS001075
(GBE_INI924)
PSS007495|
European Ancestry|
67,077 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Usual walking pace : 0.04297 [0.03998, 0.04597]
Incremental R2 (full-covars): 0.01231
PGS R2 (no covariates): 0.01271 [0.01103, 0.01439]
age, sex, UKB array type, Genotype PCs
PPM007230 PGS001397
(GBE_INI971)
PSS007501|
African Ancestry|
3,349 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Freq. of walking for pleasure in last 4 weeks : 0.04503 [0.03518, 0.05487]
Incremental R2 (full-covars): -0.00108
PGS R2 (no covariates): 0.0 [-0.00004, 0.00004]
age, sex, UKB array type, Genotype PCs
PPM007231 PGS001397
(GBE_INI971)
PSS007502|
East Asian Ancestry|
912 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Freq. of walking for pleasure in last 4 weeks : 0.0431 [0.02428, 0.06193]
Incremental R2 (full-covars): -0.00157
PGS R2 (no covariates): 0.00024 [-0.00122, 0.00169]
age, sex, UKB array type, Genotype PCs
PPM007232 PGS001397
(GBE_INI971)
PSS007503|
European Ancestry|
17,807 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Freq. of walking for pleasure in last 4 weeks : 0.02317 [0.01948, 0.02686]
Incremental R2 (full-covars): 0.0015
PGS R2 (no covariates): 0.00162 [0.00062, 0.00261]
age, sex, UKB array type, Genotype PCs
PPM007233 PGS001397
(GBE_INI971)
PSS007504|
South Asian Ancestry|
4,428 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Freq. of walking for pleasure in last 4 weeks : 0.04215 [0.03345, 0.05086]
Incremental R2 (full-covars): 0.00033
PGS R2 (no covariates): 0.00052 [-0.00049, 0.00153]
age, sex, UKB array type, Genotype PCs
PPM007234 PGS001397
(GBE_INI971)
PSS007505|
European Ancestry|
49,163 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Freq. of walking for pleasure in last 4 weeks : 0.01064 [0.0091, 0.01218]
Incremental R2 (full-covars): 0.00095
PGS R2 (no covariates): 0.00098 [0.00051, 0.00146]
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
PSS007484 6,613 individuals South Asian UKB
PSS007485 58,299 individuals European white British ancestry UKB Testing cohort (heldout set)
PSS007491 6,309 individuals African unspecified UKB
PSS007492 1,628 individuals East Asian UKB
PSS007493 24,676 individuals European non-white British ancestry UKB
PSS007494 7,430 individuals South Asian UKB
PSS007495 67,077 individuals European white British ancestry UKB Testing cohort (heldout set)
PSS007501 3,349 individuals African unspecified UKB
PSS007502 912 individuals East Asian UKB
PSS007503 17,807 individuals European non-white British ancestry UKB
PSS007504 4,428 individuals South Asian UKB
PSS007505 49,163 individuals European white British ancestry UKB Testing cohort (heldout set)
PSS003889
[
  • 2,279 cases
  • , 1,158 controls
]
African unspecified UKB
PSS003890
[
  • 728 cases
  • , 197 controls
]
East Asian UKB
PSS003891
[
  • 12,417 cases
  • , 1,734 controls
]
European non-white British ancestry UKB
PSS003892
[
  • 2,623 cases
  • , 1,128 controls
]
South Asian UKB
PSS003893
[
  • 34,031 cases
  • , 3,964 controls
]
European white British ancestry UKB Testing cohort (heldout set)
PSS007481 5,343 individuals African unspecified UKB
PSS007482 1,441 individuals East Asian UKB
PSS007483 22,129 individuals European non-white British ancestry UKB