Vitamin D (MGI) · ExPRSweb

Model details

PRS IDexprsweb-vitamin-d-29343764-gcst005367-plink-mgi-freeze3-20211120

Legacy IDExPRSweb_Vitamin-D_29343764-GCST005367_PLINK_MGI-Freeze3_20211120

Legacy modelPLINK

Catalog record ID PGS003186

Evaluation cohortMichigan Genomics Initiative Freeze 3

Trait typeQuantitative

SexBoth

Sample size6926

Genome buildhg38

Tuning parameter6.31e-14

Reference PubMed 29343764

GWAS Summary Statistics URLftp://ftp.ebi.ac.uk/pub/databases/gwas/summary_statistics/JiangX_29343764_GCST005367/harmonised/29343764-GCST005367-EFO_0004631.h.tsv.gz

Last updated2021-01-10

Performance summary

# SNPs15

P value2e-24

R²0.0149

MSE79.9277

Evaluation noteContinuous traits use R² and MSE in this preserved release.

Percentile effect metricBeta

Percentile summaries below are beta estimates for the quantitative exposure. The linked PheWAS page still reports odds ratios because downstream phecode outcomes are binary case/control phenotypes.

Top percentile	Beta	95% CI
1%	0.342	0.1789-0.5051
2%	0.341	0.2252-0.4568
5%	0.278	0.2035-0.3525
10%	0.198	0.1439-0.2521
25%	0.194	0.1566-0.2314

How to use this score page

Start with P value and the main performance metrics above to judge whether this model is useful in this cohort.
Use the top-percentile rows to see how strongly the score separates the upper PRS tail.
Use the linked PheWAS follow-up after the primary-trait evaluation, not as a substitute for it.

Flag guide: nominally significant passed the preserved release's nominal threshold; reversed effect means the observed direction ran opposite to the expected effect direction in the preserved evaluation.

Files and next steps

Start with the interactive PheWAS page to inspect notable associations for this score. Use the PRS PheWAS file for the full phenome scan, the exclusion PheWAS file for the ExPRS-specific sensitivity scan after applying this score's exposure-based exclusion rule, and the weight link when you need the score construction itself. See the Method page for metric definitions and cohort context.

Exclusion cohort: normal-range subset (20-50 ng/ml).