PGS Publication: PGP000359

Publication Information (EuropePMC)
Title Genetic risk, metabolic syndrome, and gastrointestinal cancer risk: A prospective cohort study.
PubMed ID 35730595(Europe PMC)
doi 10.1002/cam4.4923
Publication Date June 22, 2022
Journal Cancer Med
Author(s) Liu Y, Yan C, Yin S, Wang T, Zhu M, Liu L, Jin G.
Released in PGS Catalog: Sept. 8, 2022

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

PGS Developed By This Publication

Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution Scoring File (FTP Link)
PGS002747
(PRS_GI)
PGP000359 |
Liu Y et al. Cancer Med (2022)
Gastrointestinal cancer Digestive System Carcinoma 106
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002747/ScoringFiles/PGS002747.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
PPM014926 PGS002747
(PRS_GI)
PSS009932|
European Ancestry|
430,036 individuals
PGP000359 |
Liu Y et al. Cancer Med (2022)
Reported Trait: Incident gastrointestinal cancer Hazard Ratio (HR, high vs low): 2.28 [2.09, 2.49] Age group, gender, qualification, Townsend Deprivation Index, family history of cancer, smoking status, alcohol consumption and the top 10 genetic principal components
PPM014927 PGS002747
(PRS_GI)
PSS009932|
European Ancestry|
430,036 individuals
PGP000359 |
Liu Y et al. Cancer Med (2022)
Reported Trait: Incident gastrointestinal cancer (with metabolic syndrome) Hazard Ratio (HR, high vs low): 2.75 [2.43, 3.12]

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
PSS009932 MetS is defined as having any three or more of five MetS components, including central obesity, hypertension, dyslipidemia, hypertriglyceridemia, and hyperglyce- mia, according to the National Cholesterol Education Programme Adult Treatment Panel III criteria (NCEP- ATP III)
[
  • 5,494 cases
  • , 424,542 controls
]
European UKB