PGS Publication: PGP000541

Publication Information (EuropePMC)
Title Saturated fatty acid intake, genetic risk and colorectal cancer incidence: A large-scale prospective cohort study.
PubMed ID 37087737(Europe PMC)
doi 10.1002/ijc.34544
Publication Date April 23, 2023
Journal Int J Cancer
Author(s) Fan L, Cai Y, Wang H, Zhang H, Chen C, Zhang M, Lu Z, Li Y, Zhang F, Ning C, Wang W, Liu Y, Li H, Li G, Peng J, Hu K, Li B, Huang C, Yang X, Wei Y, Zhu Y, Jin M, Miao X, Tian J.
Released in PGS Catalog: Dec. 15, 2023

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:
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African
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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
GWAS
Dev
Eval
 Scoring File (FTP Link)
PGS004240
(PRS89_CRC)
 PGP000541 |
Fan L et al. Int J Cancer (2023)
 Colorectal cancer colorectal carcinoma 89
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004240/ScoringFiles/PGS004240.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
PPM020292 PGS004240
(PRS89_CRC)
 PSS011326|
Multi-ancestry (including European)|
3,809 individuals
 PGP000541 |
Fan L et al. Int J Cancer (2023)
 Reported Trait: Colorectal cancer — — Hazard ratio (HR, high vs low PRS tertile): 2.51 [2.04, 3.09] Age, sex, red meat intake, BMI, family history of CRC, smoking status, alcohol intake, townsend deprivation index, race, education (College or University degree, vocational qualifications, optional national exams at ages 17 to 18 years, national exams at age 16 years, none of the above, unknown), other common diseases (hypertension, heart diseases, diabetes) —
PPM020293 PGS004240
(PRS89_CRC)
 PSS011327|
Multi-ancestry (including European)|
125,021 individuals
 PGP000541 |
Fan L et al. Int J Cancer (2023)
 Reported Trait: Colorectal cancer — — Hazard ratio (HR, high vs low PRS tertile): 2.48 [2.11, 2.91] Age, sex, red meat intake, BMI, family history of CRC, smoking status, alcohol intake, townsend deprivation index, race, education (College or University degree, vocational qualifications, optional national exams at ages 17 to 18 years, national exams at age 16 years, none of the above, unknown), other common diseases (hypertension, heart diseases, diabetes) —
PPM020294 PGS004240
(PRS89_CRC)
 PSS011327|
Multi-ancestry (including European)|
125,021 individuals
 PGP000541 |
Fan L et al. Int J Cancer (2023)
 Reported Trait: Colorectal cancer x Saturated fatty acids interaction HR: 1.14 [1.11, 1.18] — — Age, sex, race, BMI, family history, red meat intake, smoking status, alcohol intake, townsend deprivation index, education level, other common diseases (hypertension, heart diseases, diabetes) —
PPM020295 PGS004240
(PRS89_CRC)
 PSS011326|
Multi-ancestry (including European)|
3,809 individuals
 PGP000541 |
Fan L et al. Int J Cancer (2023)
 Reported Trait: Colorectal cancer x Saturated fatty acids interaction HR: 1.17 [1.12, 1.22] — — Age, sex, race, BMI, family history, red meat intake, smoking status, alcohol intake, townsend deprivation index, education level, other common diseases (hypertension, heart diseases, diabetes) —
PPM020296 PGS004240
(PRS89_CRC)
 PSS011327|
Multi-ancestry (including European)|
125,021 individuals
 PGP000541 |
Fan L et al. Int J Cancer (2023)
 Reported Trait: Colorectal cancer (with saturated fatty acid and clinical risk factors) — AUROC: 0.734 [0.72, 0.749] — Age, sex, race, BMI, family history, red meat intake, smoking status, alcohol intake, townsend deprivation index, education level, other common diseases (hypertension, heart diseases, diabetes) —
PPM020297 PGS004240
(PRS89_CRC)
 PSS011326|
Multi-ancestry (including European)|
3,809 individuals
 PGP000541 |
Fan L et al. Int J Cancer (2023)
 Reported Trait: Colorectal cancer (with saturated fatty acid and clinical risk factors) — AUROC: 0.662 [0.64, 0.683] — Age, sex, race, BMI, family history, red meat intake, smoking status, alcohol intake, townsend deprivation index, education level, other common diseases (hypertension, heart diseases, diabetes) —

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
PSS011326 — —
[
  • 751 cases
  • , 3,058 controls
]
,
56.4 % Male samples
 Mean = 60.9 years
Sd = 6.15 years		 European, Asian unspecified, African unspecified, East Asian, Not reported European (>97%), Asian unspecified, African unspecified, East Asian, Not reported UKB —
PSS011327 — —
[
  • 1,031 cases
  • , 123,990 controls
]
,
44.9 % Male samples
 Mean = 54.9 years
Sd = 7.9 years		 European, Asian unspecified, African unspecified, East Asian, Not reported European (>95%), Asian unspecified, African unspecified, East Asian, Not reported UKB —