Predicted Trait | |
Reported Trait | Cathepsin L1 (CTSL1) serum levels |
Mapped Trait(s) | blood protein measurement (EFO_0007937) |
Additional Trait Information | uniprot:P07711 |
Score Construction | |
PGS Name | CTSL1 |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 552,084 |
Development Method | |
Name | LDpred |
Parameters | HapMap3 SNPs with MAF >0.05, HWE P>1e-05, imputation quality>0.95, fraction of causal markers 0.03. |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000089 |
Citation (link to publication) | Folkersen L et al. Nat Metab (2020) |
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 |
---|---|---|---|---|---|---|---|
— | — | 21,758 individuals | — | European | — | 13 cohorts
|
Average per-protein sample size was 17,747 |
PGS Performance Metric ID (PPM ID) |
PGS Sample Set ID (PSS ID) |
Performance Source | Trait |
PGS Effect Sizes (per SD change) |
PGS Classification Metrics | Other Metrics | Covariates Included in the Model | PGS Performance: Other Relevant Information |
---|---|---|---|---|---|---|---|---|
PPM000712 | PSS000364 | PGP000089 Folkersen L et al. (2020) |
Reported Trait: Cathepsin L1 (CTSL1) serum levels | — | — | R²: 0.09752 R² difference (PGS+covariates vs. covariates only): 0.03852 |
age + sex + 10 genetic PCs | The main manuscript further reports scores divided into genome-wide significant loci (major loci) and remaining polygenic loci, but this performance metric just reports the sum of both. |
PGS Sample Set ID (PSS ID) |
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 |
---|---|---|---|---|---|---|---|---|
PSS000364 | — | — | 4,678 individuals | — | European (Swedish) |
— | MDC | — |