PGS Publication: PGP000596

Publication Information (EuropePMC)
Title Using clinical and genetic risk factors for risk prediction of 8 cancers in the UK Biobank.
PubMed ID 38366150(Europe PMC)
doi 10.1093/jncics/pkae008
Publication Date Feb. 1, 2024
Journal JNCI Cancer Spectr
Author(s) Hu J, Ye Y, Zhou G, Zhao H.
Released in PGS Catalog: March 18, 2024

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)
PGS004689
(colorectal_cancer)
 PGP000596 |
Hu J et al. JNCI Cancer Spectr (2024)
 Colorectal cancer colorectal carcinoma 1,077,789
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004689/ScoringFiles/PGS004689.txt.gz
PGS004687
(bladder_cancer)
 PGP000596 |
Hu J et al. JNCI Cancer Spectr (2024)
 Bladder cancer urinary bladder carcinoma 1,077,775
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004687/ScoringFiles/PGS004687.txt.gz
PGS004688
(breast_cancer)
 PGP000596 |
Hu J et al. JNCI Cancer Spectr (2024)
 Breast cancer breast carcinoma 1,044,110
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004688/ScoringFiles/PGS004688.txt.gz
PGS004690
(kidney_cancer)
 PGP000596 |
Hu J et al. JNCI Cancer Spectr (2024)
 Kidney cancer renal carcinoma 6,351,669
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004690/ScoringFiles/PGS004690.txt.gz
PGS004693
(pancreatic_cancer)
 PGP000596 |
Hu J et al. JNCI Cancer Spectr (2024)
 Pancreatic cancer pancreatic carcinoma 6,351,686
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004693/ScoringFiles/PGS004693.txt.gz
PGS004692
(ovarian_cancer)
 PGP000596 |
Hu J et al. JNCI Cancer Spectr (2024)
 Ovarian cancer ovarian carcinoma 6,385,666
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004692/ScoringFiles/PGS004692.txt.gz
PGS004691
(lung_cancer)
 PGP000596 |
Hu J et al. JNCI Cancer Spectr (2024)
 Lung cancer lung carcinoma 950,353
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004691/ScoringFiles/PGS004691.txt.gz
PGS004694
(prostate_cancer)
 PGP000596 |
Hu J et al. JNCI Cancer Spectr (2024)
 Prostate cancer prostate carcinoma 1,016,708
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004694/ScoringFiles/PGS004694.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
PPM020876 PGS004691
(lung_cancer)
 PSS011435|
European Ancestry|
40,850 individuals
 PGP000596 |
Hu J et al. JNCI Cancer Spectr (2024)
 Reported Trait: Lung cancer — AUROC: 0.6178 — — —
PPM020872 PGS004687
(bladder_cancer)
 PSS011431|
European Ancestry|
40,771 individuals
 PGP000596 |
Hu J et al. JNCI Cancer Spectr (2024)
 Reported Trait: Bladder cancer — AUROC: 0.5582 — — —
PPM020873 PGS004688
(breast_cancer)
 PSS011432|
European Ancestry|
21,249 individuals
 PGP000596 |
Hu J et al. JNCI Cancer Spectr (2024)
 Reported Trait: Breast cancer — AUROC: 0.665 — — —
PPM020874 PGS004689
(colorectal_cancer)
 PSS011433|
European Ancestry|
40,648 individuals
 PGP000596 |
Hu J et al. JNCI Cancer Spectr (2024)
 Reported Trait: Colorectal cancer — AUROC: 0.556 — — —
PPM020877 PGS004692
(ovarian_cancer)
 PSS011436|
European Ancestry|
22,025 individuals
 PGP000596 |
Hu J et al. JNCI Cancer Spectr (2024)
 Reported Trait: Ovarian cancer — AUROC: 0.5298 — — —
PPM020878 PGS004693
(pancreatic_cancer)
 PSS011437|
European Ancestry|
40,877 individuals
 PGP000596 |
Hu J et al. JNCI Cancer Spectr (2024)
 Reported Trait: Pancreatic cancer — AUROC: 0.5426 — — —
PPM020879 PGS004694
(prostate_cancer)
 PSS011438|
European Ancestry|
18,514 individuals
 PGP000596 |
Hu J et al. JNCI Cancer Spectr (2024)
 Reported Trait: Prostate cancer — AUROC: 0.6894 — — —
PPM020875 PGS004690
(kidney_cancer)
 PSS011434|
European Ancestry|
40,841 individuals
 PGP000596 |
Hu J et al. JNCI Cancer Spectr (2024)
 Reported Trait: Kidney cancer — AUROC: 0.5644 — — —

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
PSS011431 — —
[
  • 257 cases
  • , 40,514 controls
]
 — European — UKB —
PSS011432 — —
[
  • 817 cases
  • , 20,432 controls
]
 — European — UKB —
PSS011433 — —
[
  • 519 cases
  • , 40,129 controls
]
 — European — UKB —
PSS011434 — —
[
  • 158 cases
  • , 40,683 controls
]
 — European — UKB —
PSS011435 — —
[
  • 439 cases
  • , 40,411 controls
]
 — European — UKB —
PSS011436 — —
[
  • 110 cases
  • , 21,915 controls
]
,
0.0 % Male samples
 — European — UKB —
PSS011437 — —
[
  • 134 cases
  • , 40,743 controls
]
 — European — UKB —
PSS011438 — —
[
  • 905 cases
  • , 17,609 controls
]
,
100.0 % Male samples
 — European — UKB —