| Publication Information (EuropePMC) | |
| Title | A model to determine colorectal cancer risk using common genetic susceptibility loci. |
| PubMed ID | 25683114(Europe PMC) |
| doi | 10.1053/j.gastro.2015.02.010 |
| Publication Date | Feb. 13, 2015 |
| Journal | Gastroenterology |
| Author(s) | Hsu L, Jeon J, Brenner H, Gruber SB, Schoen RE, Berndt SI, Chan AT, Chang-Claude J, Du M, Gong J, Ha... rrison TA, Hayes RB, Hoffmeister M, Hutter CM, Lin Y, Nishihara R, Ogino S, Prentice RL, Schumacher FR, Seminara D, Slattery ML, Thomas DC, Thornquist M, Newcomb PA, Potter JD, Zheng Y, White E, Peters U, Colorectal Transdisciplinary (CORECT) Study, Genetics and Epidemiology of Colorectal Cancer Consortium (GECCO).Show more |
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)
|
|---|---|---|---|---|---|---|
| PGS000146 (CRC_GRS_27) | PGP000069 | Hsu L et al. Gastroenterology (2015) | Colorectal cancer | colorectal cancer | 27 | - | https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000146/ScoringFiles/PGS000146.txt.gz |
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 |
|---|---|---|---|---|---|---|---|---|---|
| PPM000438 | PGS000146 (CRC_GRS_27) | PSS000254| European Ancestry| 3,292 individuals | PGP000069 | Hsu L et al. Gastroenterology (2015) | Reported Trait: Proximal colon cancer | OR: 1.07 [1.04, 1.1] | — | — | Study, age, endoscopy, family history | — |
| PPM000439 | PGS000146 (CRC_GRS_27) | PSS000252| European Ancestry| 3,269 individuals | PGP000069 | Hsu L et al. Gastroenterology (2015) | Reported Trait: Distal colon cancer | OR: 1.08 [1.06, 1.11] | — | — | Study, age, endoscopy, family history | — |
| PPM000440 | PGS000146 (CRC_GRS_27) | PSS000256| European Ancestry| 3,167 individuals | PGP000069 | Hsu L et al. Gastroenterology (2015) | Reported Trait: Rectal cancer | OR: 1.06 [1.03, 1.09] | — | — | Study, age, endoscopy, family history | — |
| PPM000441 | PGS000146 (CRC_GRS_27) | PSS000253| European Ancestry| 5,530 individuals | PGP000069 | Hsu L et al. Gastroenterology (2015) | Reported Trait: Proximal colon cancer | OR: 1.06 [1.03, 1.08] | — | — | Study, age, endoscopy, family history | — |
| PPM000442 | PGS000146 (CRC_GRS_27) | PSS000251| European Ancestry| 4,886 individuals | PGP000069 | Hsu L et al. Gastroenterology (2015) | Reported Trait: Distal colon cancer | OR: 1.08 [1.05, 1.1] | — | — | Study, age, endoscopy, family history | — |
| PPM000443 | PGS000146 (CRC_GRS_27) | PSS000255| European Ancestry| 4,573 individuals | PGP000069 | Hsu L et al. Gastroenterology (2015) | Reported Trait: Rectal cancer | OR: 1.12 [1.08, 1.15] | — | — | Study, age, endoscopy, family history | — |
| PPM000444 | PGS000146 (CRC_GRS_27) | PSS000258| European Ancestry| 1,002 individuals | PGP000069 | Hsu L et al. Gastroenterology (2015) | Reported Trait: Colorectal cancer | — | AUROC: 0.59 [0.54, 0.64] | — | Age, endoscopy, family history | — |
| PPM000445 | PGS000146 (CRC_GRS_27) | PSS000257| European Ancestry| 733 individuals | PGP000069 | Hsu L et al. Gastroenterology (2015) | Reported Trait: Colorectal cancer | — | AUROC: 0.56 [0.51, 0.61] | — | Age, endoscopy, family history | — |
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
|
|---|---|---|---|---|---|---|---|---|
| PSS000251 | Colorectal adenocarcinoma located in the distal colon confirmed by medical records, pathology report... s, or death certificateShow more | — | [ ,
0.0 % Male samples | — | European | — | 6 cohorts
| Training and test split not relevant to PGS |
| PSS000252 | Colorectal adenocarcinoma located in the distal colon confirmed by medical records, pathology report... s, or death certificateShow more | — | [ ,
100.0 % Male samples | — | European | — | 6 cohorts
| Training and test split not relevant to PGS |
| PSS000253 | Colorectal adenocarcinoma located in the proximal colon confirmed by medical records, pathology repo... rts, or death certificateShow more | — | [ ,
0.0 % Male samples | — | European | — | 6 cohorts
| Training and test split not relevant to PGS |
| PSS000254 | Colorectal adenocarcinoma located in the proximal colon confirmed by medical records, pathology repo... rts, or death certificateShow more | — | [ ,
100.0 % Male samples | — | European | — | 6 cohorts
| Training and test split not relevant to PGS |
| PSS000255 | Colorectal adenocarcinoma located in the rectum confirmed by medical records, pathology reports, or ... death certificateShow more | — | [ ,
0.0 % Male samples | — | European | — | 6 cohorts
| Training and test split not relevant to PGS |
| PSS000256 | Colorectal adenocarcinoma located in the rectum confirmed by medical records, pathology reports, or ... death certificateShow more | — | [ ,
100.0 % Male samples | — | European | — | 6 cohorts
| Training and test split not relevant to PGS |
| PSS000257 | Colorectal adenocarcinoma confirmed by medical records, pathology reports, or death certificate | — | [ ,
0.0 % Male samples | — | European | — | 6 cohorts
| Training and test split not relevant to PGS |
| PSS000258 | Colorectal adenocarcinoma confirmed by medical records, pathology reports, or death certificate | — | [ ,
100.0 % Male samples | — | European | — | 6 cohorts
| Training and test split not relevant to PGS |