PGS Publication: PGP000711

Publication Information (EuropePMC)
Title Polygenic risk scores for pan-cancer risk prediction in the Chinese population: A population-based cohort study based on the China Kadoorie Biobank.
PubMed ID 40019942(Europe PMC)
doi 10.1371/journal.pmed.1004534
Publication Date Feb. 28, 2025
Journal PLoS Med
Author(s) Zhu M, Zhu X, Han Y, Ma Z, Ji C, Wang T, Yan C, Song C, Yu C, Sun D, Jiang Y, Chen J, Yang L, Chen Y, Du H, Walters R, Millwood IY, Dai J, Ma H, Zhang Z, Chen Z, Hu Z, Lv J, Jin G, Li L, Shen H, China Kadoorie Biobank Collaborative Group.
Released in PGS Catalog: March 17, 2025

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
GWAS
Dev
Eval
 Scoring File (FTP Link)
PGS005161
(PRS-GC)
 PGP000711 |
Zhu M et al. PLoS Med (2025)
 Stomach cancer gastric cancer 12
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005161/ScoringFiles/PGS005161.txt.gz
PGS005160
(PRS-ESC)
 PGP000711 |
Zhu M et al. PLoS Med (2025)
 Esophageal cancer esophageal carcinoma 11
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005160/ScoringFiles/PGS005160.txt.gz
PGS005162
(PRS-CRC)
 PGP000711 |
Zhu M et al. PLoS Med (2025)
 Colorectal cancer colorectal carcinoma 11,462
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005162/ScoringFiles/PGS005162.txt.gz
PGS005163
(PRS-LC)
 PGP000711 |
Zhu M et al. PLoS Med (2025)
 Lung cancer lung carcinoma 42
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005163/ScoringFiles/PGS005163.txt.gz
PGS005166
(PRS-OC)
 PGP000711 |
Zhu M et al. PLoS Med (2025)
 Ovarian cancer ovarian carcinoma 2,802
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005166/ScoringFiles/PGS005166.txt.gz
PGS005167
(PRS-PC)
 PGP000711 |
Zhu M et al. PLoS Med (2025)
 Prostate cancer prostate carcinoma 157
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005167/ScoringFiles/PGS005167.txt.gz
PGS005164
(PRS-BC)
 PGP000711 |
Zhu M et al. PLoS Med (2025)
 Breast cancer breast carcinoma 109
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005164/ScoringFiles/PGS005164.txt.gz
PGS005165
(PRS-CC)
 PGP000711 |
Zhu M et al. PLoS Med (2025)
 Cervical cancer cervical carcinoma 15
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005165/ScoringFiles/PGS005165.txt.gz

External PGS Evaluated 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)
PGS000663
(wGRS22)
 PGP000123 |
Kim J et al. Cancer Epidemiol Biomarkers Prev (2020)
 Pancreatic cancer pancreatic carcinoma 22
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000663/ScoringFiles/PGS000663.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
PPM022398 PGS005161
(PRS-GC)
 PSS011938|
East Asian Ancestry|
100,219 individuals
 PGP000711 |
Zhu M et al. PLoS Med (2025)
 Reported Trait: Stomach Cancer HR: 1.27 [1.18, 1.38]
β: 0.239		 C-index: 0.572 — Age,Sex (if applicable),Region,Top 10 genetic ancestry principal components The HR and C-index values were derived from Cox proportional hazards regression models.
PPM022399 PGS005162
(PRS-CRC)
 PSS011936|
East Asian Ancestry|
100,219 individuals
 PGP000711 |
Zhu M et al. PLoS Med (2025)
 Reported Trait: Colorectal Cancer HR: 1.54 [1.43, 1.66]
β: 0.432		 C-index: 0.612 — Age,Sex (if applicable),Region,Top 10 genetic ancestry principal components The HR and C-index values were derived from Cox proportional hazards regression models.
PPM022400 PGS000663
(wGRS22)
 PSS011940|
East Asian Ancestry|
100,219 individuals
 PGP000711 |
Zhu M et al. PLoS Med (2025)
|Ext.		 Reported Trait: Pancreatic Cancer HR: 1.28 [1.1, 1.48]
β: 0.246		 C-index: 0.586 — Age,Sex (if applicable),Region,Top 10 genetic ancestry principal components The HR and C-index values were derived from Cox proportional hazards regression models.
PPM022401 PGS005163
(PRS-LC)
 PSS011939|
East Asian Ancestry|
100,219 individuals
 PGP000711 |
Zhu M et al. PLoS Med (2025)
 Reported Trait: Lung Cancer HR: 1.22 [1.16, 1.28]
β: 0.199		 C-index: 0.55 — Age,Sex (if applicable),Region,Top 10 genetic ancestry principal components The HR and C-index values were derived from Cox proportional hazards regression models.
PPM022402 PGS005164
(PRS-BC)
 PSS011942|
East Asian Ancestry|
57,359 individuals
 PGP000711 |
Zhu M et al. PLoS Med (2025)
 Reported Trait: Breast Cancer HR: 1.42 [1.3, 1.55]
β: 0.344		 C-index: 0.596 — Age,Sex (if applicable),Region,Top 10 genetic ancestry principal components The HR and C-index values were derived from Cox proportional hazards regression models.
PPM022403 PGS005165
(PRS-CC)
 PSS011943|
East Asian Ancestry|
57,359 individuals
 PGP000711 |
Zhu M et al. PLoS Med (2025)
 Reported Trait: Cervical Cancer HR: 1.2 [1.06, 1.36]
β: 0.182		 C-index: 0.566 — Age,Sex (if applicable),Region,Top 10 genetic ancestry principal components The HR and C-index values were derived from Cox proportional hazards regression models.
PPM022404 PGS005166
(PRS-OC)
 PSS011944|
East Asian Ancestry|
57,359 individuals
 PGP000711 |
Zhu M et al. PLoS Med (2025)
 Reported Trait: Ovarian Cancer HR: 1.25 [1.02, 1.52]
β: 0.223		 C-index: 0.579 — Age,Sex (if applicable),Region,Top 10 genetic ancestry principal components The HR and C-index values were derived from Cox proportional hazards regression models.
PPM022405 PGS005167
(PRS-PC)
 PSS011941|
East Asian Ancestry|
42,860 individuals
 PGP000711 |
Zhu M et al. PLoS Med (2025)
 Reported Trait: Prostate Cancer HR: 1.75 [1.43, 2.15]
β: 0.565		 C-index: 0.658 — Age,Sex (if applicable),Region,Top 10 genetic ancestry principal components The HR and C-index values were derived from Cox proportional hazards regression models.
PPM022397 PGS005160
(PRS-ESC)
 PSS011937|
East Asian Ancestry|
100,219 individuals
 PGP000711 |
Zhu M et al. PLoS Med (2025)
 Reported Trait: Esophageal Cancer HR: 1.26 [1.16, 1.38]
β: 0.246		 C-index: 0.559 — Age,Sex (if applicable),Region,Top 10 genetic ancestry principal components The HR and C-index values were derived from Cox proportional hazards regression models.

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
PSS011936 ICD-10: C18-20 Median = 11.33 years
Range = [10.18, 12.26] years
[
  • 740 cases
  • , 99,479 controls
]
,
42.8 % Male samples
 Mean = 53.69 years
Sd = 11.01 years		 East Asian
(Chinese)		 — CKB —
PSS011937 ICD-10: C15 Median = 11.33 years
Range = [10.18, 12.26] years
[
  • 499 cases
  • , 99,720 controls
]
,
42.8 % Male samples
 Mean = 53.69 years
Sd = 11.01 years		 East Asian
(Chinese)		 — CKB —
PSS011938 ICD-10: C16 Median = 11.33 years
Range = [10.18, 12.26] years
[
  • 745 cases
  • , 99,474 controls
]
,
42.8 % Male samples
 Mean = 53.69 years
Sd = 11.01 years		 East Asian
(Chinese)		 — CKB —
PSS011939 ICD-10: C33-34 Median = 11.33 years
Range = [10.18, 12.26] years
[
  • 1,540 cases
  • , 98,679 controls
]
,
42.8 % Male samples
 Mean = 53.69 years
Sd = 11.01 years		 East Asian
(Chinese)		 — CKB —
PSS011940 ICD-10: C25 Median = 11.33 years
Range = [10.18, 12.26] years
[
  • 170 cases
  • , 100,049 controls
]
,
42.8 % Male samples
 Mean = 53.69 years
Sd = 11.01 years		 East Asian
(Chinese)		 — CKB —
PSS011941 ICD-10: C61 Median = 11.33 years
Range = [10.18, 12.26] years
[
  • 95 cases
  • , 42,765 controls
]
,
100.0 % Male samples
 Mean = 53.69 years
Sd = 11.01 years		 East Asian
(Chinese)		 — CKB —
PSS011942 ICD-10: C50 Median = 11.33 years
Range = [10.18, 12.26] years
[
  • 486 cases
  • , 56,873 controls
]
,
0.0 % Male samples
 Mean = 53.69 years
Sd = 11.01 years		 East Asian
(Chinese)		 — CKB —
PSS011943 ICD-10: C53 Median = 11.33 years
Range = [10.18, 12.26] years
[
  • 237 cases
  • , 57,122 controls
]
,
0.0 % Male samples
 Mean = 53.69 years
Sd = 11.01 years		 East Asian
(Chinese)		 — CKB —
PSS011944 ICD-10: C56 Median = 11.33 years
Range = [10.18, 12.26] years
[
  • 96 cases
  • , 57,263 controls
]
,
0.0 % Male samples
 Mean = 53.69 years
Sd = 11.01 years		 East Asian
(Chinese)		 — CKB —