PGS Publication: PGP000071

Publication Information (EuropePMC)
Title Determining Risk of Colorectal Cancer and Starting Age of Screening Based on Lifestyle, Environmental, and Genetic Factors.
PubMed ID 29458155(Europe PMC)
doi 10.1053/j.gastro.2018.02.021
Publication Date Feb. 17, 2018
Journal Gastroenterology
Author(s) Jeon J, Du M, Schoen RE, Hoffmeister M, Newcomb PA, Berndt SI, Caan B, Campbell PT, Chan AT, Chang-Claude J, Giles GG, Gong J, Harrison TA, Huyghe JR, Jacobs EJ, Li L, Lin Y, Le Marchand L, Potter JD, Qu C, Bien SA, Zubair N, Macinnis RJ, Buchanan DD, Hopper JL, Cao Y, Nishihara R, Rennert G, Slattery ML, Thomas DC, Woods MO, Prentice RL, Gruber SB, Zheng Y, Brenner H, Hayes RB, White E, Peters U, Hsu L, Colorectal Transdisciplinary Study and Genetics and Epidemiology of Colorectal Cancer Consortium.
Released in PGS Catalog: April 29, 2020

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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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)
PGS000148
(CRC63)
 PGP000071 |
Jeon J et al. Gastroenterology (2018)
 Colorectal cancer colorectal cancer 63
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000148/ScoringFiles/PGS000148.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
PPM000452 PGS000148
(CRC63)
 PSS000260|
European Ancestry|
5,500 individuals
 PGP000071 |
Jeon J et al. Gastroenterology (2018)
 Reported Trait: Colorectal cancer — AUROC: 0.59 [0.58, 0.6] — age, family history, study, endoscopy history Risk prediction using Model III (Family History & G-score)
PPM000451 PGS000148
(CRC63)
 PSS000261|
European Ancestry|
4,666 individuals
 PGP000071 |
Jeon J et al. Gastroenterology (2018)
 Reported Trait: Colorectal cancer — AUROC: 0.63 [0.62, 0.64] — age, family history, study, endoscopy history, E-score (height, body mass index, education, history of type 2 diabetes mellitus, smoking status, alcohol consumption, regular aspirin use, regular NSAIDs use, smoking pack-years, dietary factors, total-energy, physical activity) Risk prediction using Model IV (Family history & E-score & G-score)
PPM000450 PGS000148
(CRC63)
 PSS000261|
European Ancestry|
4,666 individuals
 PGP000071 |
Jeon J et al. Gastroenterology (2018)
 Reported Trait: Colorectal cancer — AUROC: 0.59 [0.58, 0.6] — age, family history, study, endoscopy history Risk prediction using Model III (Family History & G-score)
PPM000453 PGS000148
(CRC63)
 PSS000260|
European Ancestry|
5,500 individuals
 PGP000071 |
Jeon J et al. Gastroenterology (2018)
 Reported Trait: Colorectal cancer — AUROC: 0.62 [0.61, 0.63] — age, family history, study, endoscopy history, E-score (height, body mass index, education, history of type 2 diabetes mellitus, smoking status, alcohol consumption, regular aspirin use, regular NSAIDs use, regular use of post-menopausal hormones, smoking pack-years, dietary factors, total-energy, physical activity) Risk prediction using Model IV (Family history & E-score & G-score)

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
PSS000260 — —
[
  • 2,568 cases
  • , 2,932 controls
]
,
0.0 % Male samples
 Mean (Cases) = 68.8 years
Sd (Cases) = 9.7 years		 European — 14 cohorts
  • CPSII
  • ,DACHS
  • ,DALS
  • ,HPFS
  • ,Hawaiian_Colo2&3
  • ,KCCS
  • ,MCCS
  • ,MEC
  • ,MECC
  • ,NFCCR
  • ,NHS
  • ,PLCO
  • ,VITAL
  • ,WHI
 —
PSS000261 — —
[
  • 2,307 cases
  • , 2,359 controls
]
,
100.0 % Male samples
 Mean (Cases) = 67.8 years
Sd (Cases) = 9.7 years		 European — 14 cohorts
  • CPSII
  • ,DACHS
  • ,DALS
  • ,HPFS
  • ,Hawaiian_Colo2&3
  • ,KCCS
  • ,MCCS
  • ,MEC
  • ,MECC
  • ,NFCCR
  • ,NHS
  • ,PLCO
  • ,VITAL
  • ,WHI
 —