Trait: biliary tract disease

Experimental Factor Ontology (EFO) Information
Identifier EFO_0009534
Description A disease involving the biliary tree.
Trait category
Digestive system disorder
Synonyms 6 synonyms
  • biliary tract disease
  • biliary tree disease
  • biliary tree disease or disorder
  • disease of biliary tree
  • disease or disorder of biliary tree
  • disorder of biliary tree
Mapped terms 9 mapped terms
  • DOID:9741
  • ICD10:K83
  • ICD10:K83.9
  • ICD9:576.9
  • MESH:D001660
  • MONDO:0004868
  • MeSH:D001660
  • MedDRA:10004676
  • SCTID:105997008

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)
PGS001862
(portability-PLR_575)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Other biliary tract disease biliary tract disease 151
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001862/ScoringFiles/PGS001862.txt.gz
PGS002073
(portability-ldpred2_575)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Other biliary tract disease biliary tract disease 363,801
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002073/ScoringFiles/PGS002073.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
PPM009785 PGS001862
(portability-PLR_575)
PSS009337|
European Ancestry|
19,288 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Other biliary tract disease Partial Correlation (partial-r): 0.0221 [0.008, 0.0362] sex, age, birth date, deprivation index, 16 PCs
PPM009786 PGS001862
(portability-PLR_575)
PSS009111|
European Ancestry|
3,998 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Other biliary tract disease Partial Correlation (partial-r): 0.0485 [0.0174, 0.0795] sex, age, birth date, deprivation index, 16 PCs
PPM009787 PGS001862
(portability-PLR_575)
PSS008665|
European Ancestry|
6,436 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Other biliary tract disease Partial Correlation (partial-r): -0.0029 [-0.0274, 0.0215] sex, age, birth date, deprivation index, 16 PCs
PPM009788 PGS001862
(portability-PLR_575)
PSS008439|
Greater Middle Eastern Ancestry|
1,170 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Other biliary tract disease Partial Correlation (partial-r): 0.0133 [-0.0445, 0.0711] sex, age, birth date, deprivation index, 16 PCs
PPM009789 PGS001862
(portability-PLR_575)
PSS008219|
South Asian Ancestry|
6,142 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Other biliary tract disease Partial Correlation (partial-r): 0.0217 [-0.0033, 0.0468] sex, age, birth date, deprivation index, 16 PCs
PPM009790 PGS001862
(portability-PLR_575)
PSS008000|
East Asian Ancestry|
1,775 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Other biliary tract disease Partial Correlation (partial-r): 0.03 [-0.0168, 0.0767] sex, age, birth date, deprivation index, 16 PCs
PPM009792 PGS001862
(portability-PLR_575)
PSS008888|
African Ancestry|
3,852 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Other biliary tract disease Partial Correlation (partial-r): -0.0004 [-0.0321, 0.0312] sex, age, birth date, deprivation index, 16 PCs
PPM009791 PGS001862
(portability-PLR_575)
PSS007784|
African Ancestry|
2,432 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Other biliary tract disease Partial Correlation (partial-r): 0.0111 [-0.0288, 0.051] sex, age, birth date, deprivation index, 16 PCs
PPM011445 PGS002073
(portability-ldpred2_575)
PSS009337|
European Ancestry|
19,288 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Other biliary tract disease Partial Correlation (partial-r): 0.0215 [0.0074, 0.0356] sex, age, birth date, deprivation index, 16 PCs
PPM011446 PGS002073
(portability-ldpred2_575)
PSS009111|
European Ancestry|
3,998 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Other biliary tract disease Partial Correlation (partial-r): 0.0453 [0.0142, 0.0762] sex, age, birth date, deprivation index, 16 PCs
PPM011447 PGS002073
(portability-ldpred2_575)
PSS008665|
European Ancestry|
6,436 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Other biliary tract disease Partial Correlation (partial-r): -0.0067 [-0.0311, 0.0178] sex, age, birth date, deprivation index, 16 PCs
PPM011448 PGS002073
(portability-ldpred2_575)
PSS008439|
Greater Middle Eastern Ancestry|
1,170 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Other biliary tract disease Partial Correlation (partial-r): -0.0075 [-0.0653, 0.0503] sex, age, birth date, deprivation index, 16 PCs
PPM011449 PGS002073
(portability-ldpred2_575)
PSS008219|
South Asian Ancestry|
6,142 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Other biliary tract disease Partial Correlation (partial-r): 0.029 [0.004, 0.054] sex, age, birth date, deprivation index, 16 PCs
PPM011450 PGS002073
(portability-ldpred2_575)
PSS008000|
East Asian Ancestry|
1,775 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Other biliary tract disease Partial Correlation (partial-r): 0.053 [0.0062, 0.0995] sex, age, birth date, deprivation index, 16 PCs
PPM011452 PGS002073
(portability-ldpred2_575)
PSS008888|
African Ancestry|
3,852 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Other biliary tract disease Partial Correlation (partial-r): 0.0035 [-0.0281, 0.0352] sex, age, birth date, deprivation index, 16 PCs
PPM011451 PGS002073
(portability-ldpred2_575)
PSS007784|
African Ancestry|
2,432 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Other biliary tract disease Partial Correlation (partial-r): 0.0039 [-0.036, 0.0438] sex, age, birth date, deprivation index, 16 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
PSS007784 2,432 individuals African American or Afro-Caribbean Carribean UKB
PSS008439 1,170 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS009111 3,998 individuals European Poland (NE Europe) UKB
PSS008665 6,436 individuals European Italy (South Europe) UKB
PSS009337 19,288 individuals European UK (+ Ireland) UKB
PSS008219 6,142 individuals South Asian India (South Asia) UKB
PSS008888 3,852 individuals African unspecified Nigeria (West Africa) UKB
PSS008000 1,775 individuals East Asian China (East Asia) UKB