Predicted Trait | |
Reported Trait | Colorectal cancer |
Mapped Trait(s) | colorectal cancer (MONDO_0005575) |
Score Construction | |
PGS Name | CRC_19 |
Development Method | |
Name | LASSO penalized regression |
Parameters | 10-fold cross-validation, lambda (λ) = 0.012, r^2 < 0.20 |
Variants | |
Original Genome Build | NR |
Number of Variants | 19 |
Effect Weight Type | NR |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000191 |
Citation (link to publication) | He CY et al. Genomics (2021) |
Study Identifiers
|
Sample Numbers
|
Sample Ancestry
|
Cohort(s)
|
---|---|---|---|
Europe PMC: 21655089 | [
| European | 8 cohorts
|
GWAS Catalog: GCST000113 Europe PMC: 17934461 | 1,890 individuals | European | CoRGI |
GWAS Catalog: GCST000948 Europe PMC: 21242260 | 3,481 individuals | East Asian | BBJ, O-MRC |
GWAS Catalog: GCST001161 Europe PMC: 21761138 | 6,322 individuals | European | CCFR, DALS, PLCO, WHI |
GWAS Catalog: GCST001544 Europe PMC: 22634755 | 17,780 individuals | European | COGS, CoRGI, NSCCG, SOCCS, VICTOR |
GWAS Catalog: GCST001787 Europe PMC: 23266556 | 27,809 individuals | European | NR |
GWAS Catalog: GCST001792 Europe PMC: 23263487 | 7,847 individuals | East Asian | Aichi_Con, Guangzhou, KCPS, Shanghai |
GWAS Catalog: GCST002454 Europe PMC: 24836286 | 8,270 individuals | East Asian | Aichi_Con, Guangzhou, KCPS, Shanghai |
GWAS Catalog: GCST003799 Europe PMC: 26965516 | 21,096 individuals | East Asian | BBJ, Guangzhou, KCPS, Shanghai |
Study Identifiers
|
Sample Numbers
|
Sample Ancestry
|
Cohort(s)
|
Phenotype Definitions & Methods
|
Age of Study Participants
|
Participant Follow-up Time
|
Additional Ancestry Description
|
Additional Sample/Cohort Information
|
---|---|---|---|---|---|---|---|---|
— | [ ,
54.07 % Male samples | East Asian (Han-Chinese) | NR | Exclusion criteria for healthy controls included subjects with polyposis, adenomas, and diseases rel... ated to or causing a predisposition for cancer. Cases included subjects with colorectal cancer, confirmed by endoscopic and histological examinations.Show more | — | — | — | Subjects obtained from Sun Yat-Sen University Cancer Center (SYSUCC) |
PGS Performance Metric ID (PPM) |
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 |
---|---|---|---|---|---|---|---|---|
PPM002094 | PSS001033| East Asian Ancestry| 5,465 individuals | PGP000191 | He CY et al. Genomics (2021) | Reported Trait: Colorectal cancer | — | AUROC: 0.59 [0.57, 0.6] | — | — | Possible overlap with score development samples |
PPM002095 | PSS001032| East Asian Ancestry| 2,566 individuals | PGP000191 | He CY et al. Genomics (2021) | Reported Trait: Colorectal cancer | — | AUROC: 0.61 [0.59, 0.63] | — | — | — |
PPM002096 | PSS001031| East Asian Ancestry| 2,269 individuals | PGP000191 | He CY et al. Genomics (2021) | Reported Trait: Colorectal cancer | — | AUROC: 0.59 [0.57, 0.61] | — | — | — |
PPM002097 | PSS001033| East Asian Ancestry| 5,465 individuals | PGP000191 | He CY et al. Genomics (2021) | Reported Trait: Colorectal cancer | — | — | Odds Ratio (OR, top 75% vs bottom 25%): 2.27 [1.95, 2.64] | Gender, age | possible overlap with score development samples |
PPM002098 | PSS001032| East Asian Ancestry| 2,566 individuals | PGP000191 | He CY et al. Genomics (2021) | Reported Trait: Colorectal cancer | — | — | Odds Ratio (OR, top 75% vs bottom 25%): 2.53 [1.99, 3.22] | Gender, age | — |
PPM002099 | PSS001031| East Asian Ancestry| 2,269 individuals | PGP000191 | He CY et al. Genomics (2021) | Reported Trait: Colorectal cancer | — | — | Odds Ratio (OR, top 75% vs bottom 25%): 2.12 [1.63, 2.77] | Gender, age | — |
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
|
---|---|---|---|---|---|---|---|---|
PSS001031 | Exclusion criteria for healthy controls included subjects with polyposis, adenomas, and diseases rel... ated to or causing a predisposition for cancer. Cases included subjects with colorectal cancer, confirmed by endoscopic and histological examinations.Show more | — | [ ,
51.39 % Male samples | — | East Asian (Han-Chinese) | — | NR | Subects obtained from First Hospital of China Medical University (CMU) |
PSS001032 | Exclusion criteria for healthy controls included subjects with polyposis, adenomas, and diseases rel... ated to or causing a predisposition for cancer. Cases included subjects with colorectal cancer, confirmed by endoscopic and histological examinations.Show more | — | [ ,
53.86 % Male samples | — | East Asian (Han-Chinese) | — | NR | Subjects obtained from Fudan University Shanghai Cancer Center (FUSCC) |
PSS001033 | Exclusion criteria for healthy controls included subjects with polyposis, adenomas, and diseases rel... ated to or causing a predisposition for cancer. Cases included subjects with colorectal cancer, confirmed by endoscopic and histological examinations.Show more | — | [ ,
53.72 % Male samples | — | East Asian (Han-Chinese) | — | NR | Subjects obtained from Sun Yat-Sen University Cancer Center (SYSUCC) |