Trait: colorectal health

Experimental Factor Ontology (EFO) Information
Identifier EFO_0008460
Description The characteristics of a person’s colorectal health, assessed for example by colonoscopy.
Trait category
Other trait

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)
PGS001376
(GBE_INI21044)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Average number of times bowels opened per day colorectal health 845
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https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001376/ScoringFiles/PGS001376.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
PPM005268 PGS001376
(GBE_INI21044)
PSS004929|
South Asian Ancestry|
1,179 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ave. # of times bowels opened per day : 0.02854 [0.02128, 0.03581]
Incremental R2 (full-covars): 0.00207
PGS R2 (no covariates): 0.00214 [0.0001, 0.00419]
age, sex, UKB array type, Genotype PCs
PPM005265 PGS001376
(GBE_INI21044)
PSS004926|
African Ancestry|
994 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ave. # of times bowels opened per day : 0.0174 [0.0111, 0.0237]
Incremental R2 (full-covars): -0.00408
PGS R2 (no covariates): 0.00131 [-0.00045, 0.00307]
age, sex, UKB array type, Genotype PCs
PPM005266 PGS001376
(GBE_INI21044)
PSS004927|
East Asian Ancestry|
390 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ave. # of times bowels opened per day : 0.03393 [0.01707, 0.05079]
Incremental R2 (full-covars): -0.00945
PGS R2 (no covariates): 0.0038 [-0.00202, 0.00961]
age, sex, UKB array type, Genotype PCs
PPM005267 PGS001376
(GBE_INI21044)
PSS004928|
European Ancestry|
9,083 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ave. # of times bowels opened per day : 0.01143 [0.0088, 0.01405]
Incremental R2 (full-covars): 0.00179
PGS R2 (no covariates): 0.00187 [0.0008, 0.00294]
age, sex, UKB array type, Genotype PCs
PPM005269 PGS001376
(GBE_INI21044)
PSS004930|
European Ancestry|
24,268 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ave. # of times bowels opened per day : 0.00354 [0.00264, 0.00443]
Incremental R2 (full-covars): 0.00201
PGS R2 (no covariates): 0.00204 [0.00136, 0.00273]
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
PSS004926 994 individuals African unspecified UKB
PSS004927 390 individuals East Asian UKB
PSS004928 9,083 individuals European non-white British ancestry UKB
PSS004929 1,179 individuals South Asian UKB
PSS004930 24,268 individuals European white British ancestry UKB Testing cohort (heldout set)