PGS Publication: PGP000749

Publication Information (EuropePMC)
Title Evaluating sex-specific prediction models for colorectal cancer risk using a genome-wide polygenic risk score and lifestyle factors in a Japanese population.
PubMed ID 40675087(Europe PMC)
doi 10.1016/j.canep.2025.102878
Publication Date July 16, 2025
Journal Cancer Epidemiol
Author(s) Nakano S, Yamaji T, Hachiya T, Kuchiba A, Shimizu A, Sawada N, Inoue M, Tsugane S, Iwasaki M, Japan Public Health Center-based Prospective Study Group.
Released in PGS Catalog: Aug. 6, 2025

Associated Polygenic Score(s)

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Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
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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)
PGS005275
(CRC_PRS_JPHC_JPGWAS)
 PGP000749 |
Nakano S et al. Cancer Epidemiol (2025)
 Colorectal cancer colorectal carcinoma 104,677
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005275/ScoringFiles/PGS005275.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
PPM022759 PGS005275
(CRC_PRS_JPHC_JPGWAS)
 PSS012071|
East Asian Ancestry|
7,943 individuals
 PGP000749 |
Nakano S et al. Cancer Epidemiol (2025)
 Reported Trait: incident colorectal cancer HR: 1.411 [1.229, 1.621] — HR of the top quintile compared to the bottom quintile: 2.27 [1.49, 3.46] age —
PPM022758 PGS005275
(CRC_PRS_JPHC_JPGWAS)
 PSS012070|
East Asian Ancestry|
4,444 individuals
 PGP000749 |
Nakano S et al. Cancer Epidemiol (2025)
 Reported Trait: incident colorectal cancer HR: 1.475 [1.283, 1.696] — HR of the top quintile compared to the bottom quintile: 2.94 [1.94, 4.45] age —

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
PSS012071 — —
[
  • 341 cases
  • , 7,602 controls
]
,
0.0 % Male samples
 Mean (Cases) = 56.0 years
Sd = 7.3 years		 East Asian
(Japanese)		 — JPHC mean (subcohorts) = 53.8 years; sd = 7.8
PSS012070 — —
[
  • 352 cases
  • , 4,092 controls
]
,
100.0 % Male samples
 Mean (Cases) = 56.7 years
Sd = 7.6 years		 East Asian
(Japanese)		 — JPHC mean (subcohorts) = 54.0 years; sd = 8.2