MR feasibility tier: A — Published pQTL-MR estimates exist for this protein (retrieved below - not computed here).
1. Published MR estimates (retrieved, not computed)
| Outcome |
beta |
se |
p |
method |
nSNP |
cis/trans |
coloc |
| Diagnoses - main ICD10: D25 Leiomyoma of uterus |
0.149 |
0.0593 |
0.0121 |
Wald ratio |
1 |
cis |
NA |
| Lung cancer |
0.145 |
0.0722 |
0.0439 |
Wald ratio |
1 |
cis |
NA |
| Diagnoses - main ICD10: N92 Excessive frequent and irregular menstruation |
-0.117 |
0.0611 |
0.0555 |
Wald ratio |
1 |
cis |
NA |
| Diagnoses - main ICD10: C50 Malignant neoplasm of breast |
0.1 |
0.0552 |
0.0695 |
Wald ratio |
1 |
cis |
NA |
| Vascular or heart problems diagnosed by doctor: Angina |
0.0727 |
0.0406 |
0.0734 |
Wald ratio |
1 |
cis |
NA |
| Hirschsprung’s disease |
-0.719 |
0.406 |
0.0767 |
Wald ratio |
1 |
cis |
NA |
| Forced expiratory volume in 1-second (FEV1) |
-0.0119 |
0.00673 |
0.0773 |
Wald ratio |
1 |
cis |
NA |
| Cancer code self-reported: basal cell carcinoma |
0.126 |
0.072 |
0.0802 |
Wald ratio |
1 |
cis |
NA |
| Fractured bone site(s): Other bones |
0.0557 |
0.032 |
0.0821 |
Wald ratio |
1 |
cis |
NA |
| Hearing difficulty or problems: Yes |
-0.0238 |
0.0137 |
0.0839 |
Wald ratio |
1 |
cis |
NA |
| HDL cholesterol |
-0.0336 |
0.0196 |
0.0869 |
Wald ratio |
1 |
cis |
NA |
| Fractured or broken bones in last 5 years |
0.0396 |
0.0233 |
0.0899 |
Wald ratio |
1 |
cis |
NA |
| …and 88 more outcomes (see JSON) |
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2. pQTL instrument availability (Tier-B probe)
| Dataset |
Trait |
Author |
Year |
prot-c-3607_71_1 |
DKK3 |
Suhre K |
2019 |
3. GWAS Catalog results — traits with signal at this locus
51 association rows across 28 traits (38 genome-wide significant rows). Associations are loci, not causal claims; the mapped gene at a locus is not necessarily the effector gene.
| Trait |
best p |
lead SNP |
n assoc |
study |
MR status |
| Circulating DKK3 levels |
8e-737 |
rs11022114 |
6 |
GCST90860592 |
no MR -> candidate analysis |
| DKK3 protein levels |
2e-250 |
rs10734190 |
8 |
GCST90468998 |
no MR -> candidate analysis |
| Dickkopf-related protein 3 levels |
1e-122 |
rs11022114 |
3 |
GCST90247287 |
no MR -> candidate analysis |
| Height |
4e-116 |
rs3206824 |
5 |
GCST90245848 |
MR: beta=0.014, p=0.274 (cis) |
| ANGPTL2 protein levels |
1e-42 |
rs138260315 |
2 |
GCST90468303 |
no MR -> candidate analysis |
| Dickkopf-related protein 3 levels (DKK3.3607.71.6) |
7e-36 |
rs11022114 |
1 |
GCST90240905 |
no MR -> candidate analysis |
| Serum levels of protein DKK3 |
8e-31 |
rs11022114 |
2 |
GCST90088455 |
no MR -> candidate analysis |
| Standing height (UKB data field 50) |
3e-19 |
rs3206824 |
1 |
GCST90468178 |
no MR -> candidate analysis |
| Free Cholesterol to Cholesteryl Esters in Small HDL ratio |
1e-15 |
rs17463794 |
1 |
GCST90827928 |
no MR -> candidate analysis |
| Height (baseline) |
2e-14 |
rs6485328 |
3 |
GCST90565843 |
no MR -> candidate analysis |
| Body shape phenotype PC2 |
3e-13 |
rs10734190 |
1 |
GCST90832990 |
no MR -> candidate analysis |
| Body mass index |
3e-10 |
rs7396187 |
1 |
GCST90662912 |
MR: beta=-0.00901, p=0.246 (cis) |
| …and 16 more traits (see JSON) |
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|
4. Phenome map — where this gene is a genetic locus, vs. where MR exists
Top diseases by Open Targets association (of 474 total). Associations are loci, not causal claims. The causal-status column is a four-state triage per pair: established (curated) = a curated clinical assertion exists (ClinGen/G2P/GEL/Orphanet/ClinVar — any validity level, MR adds little); exploratory rare-variant signal = ExWAS burden evidence without curation — a candidate NEW gene-disease relationship; common-variant locus = GWAS signal, classic pQTL-MR territory; multi-layer = burden+GWAS together, an allelic-series candidate (the strongest causal setup). Burden estimand is carrier-vs-noncarrier, not per-SD MR.
| Disease |
genetic assoc. |
burden (ExWAS) |
causal status |
MR status |
| Abnormality of the skeletal system |
0.706 |
— |
common-variant locus |
no MR -> candidate analysis |
| hypothyroidism |
0.638 |
— |
common-variant locus |
MR: beta=-0.0274, p=0.441 (cis) |
| Isolated polycystic liver disease |
0.552 |
— |
established (curated) |
no MR -> candidate analysis |
| autosomal dominant polycystic liver disease |
0.552 |
— |
established (curated) |
no MR -> candidate analysis |
| response to stimulus |
0.55 |
— |
common-variant locus |
no MR -> candidate analysis |
| adverse effect |
0.55 |
— |
common-variant locus |
no MR -> candidate analysis |
| bladder calculus |
0.45 |
— |
common-variant locus |
no MR -> candidate analysis |
| diabetes mellitus |
0.438 |
— |
common-variant locus |
no MR -> candidate analysis |
| autosomal dominant polycystic kidney disease |
0.228 |
— |
established (curated) |
no MR -> candidate analysis |
| marfanoid habitus and intellectual disability |
0.195 |
— |
established (curated) |
no MR -> candidate analysis |
Of the 10 rows above, 9 have no MR estimate in this resource. Across all retrieved diseases for this gene: 0 exploratory rare-variant signal(s), 0 multi-layer (allelic-series candidate) pair(s). Final triage still belongs to a statistical geneticist.
5. Downstream annotation (druggability & safety preview)
| Layer |
Result |
| ChEMBL druggability |
not available — no ChEMBL target (undrugged) |
| gnomAD constraint |
pLI=1.5e-05, LOEUF=0.946 — LoF-tolerant |
| GWAS Catalog |
68 unique SNPs / 136 rows |
| ClinVar |
74 records; 0 pathogenic in sample of 30 |
| PharmGKB/ClinPGx |
no annotations |
phenome — Top 30 of 474 associated diseases by overall score. genetic_association aggregates GWAS common-variant AND rare-variant evidence. These are ASSOCIATIONS (loci), not causal claims.chembl — No ChEMBL target for ‘DKK3’.clinvar — Pathogenic count is over the 30 record(s) retrieved, NOT over all 74 ClinVar records for this gene; it is a sample, not a rate.pharmgkb — No PharmGKB/ClinPGx clinical annotations (gene may not be a pharmacogene).gwas_traits — Top 20 of 28 traits by best p-value, aggregated from 51 association rows. These are GWAS ASSOCIATIONS (loci), not causal claims; mapped genes at a locus are not necessarily the effector gene.
Sources
uniprot: https://www.uniprot.org/uniprotkb/Q9UBP4 — UniProt release 2026_02 (10-June-2026)mr_outcomes: https://epigraphdb.org/pqtl/ — EpiGraphDB pQTL MR (Zheng et al., Nat Genet 2020) — pre-computed two-sample MR; retrieved, not computed by this agent; EpiGraphDB build 1.0, pQTL dataset v3.0phenome: https://platform.opentargets.org/target/ENSG00000050165/associations — Open Targets data release 26.06gnomad: https://gnomad.broadinstitute.org/gene/DKK3 — gnomAD constraint via GraphQL API (reference genome GRCh38)gwas: https://www.ebi.ac.uk/gwas/genes/DKK3 — GWAS Catalog REST (live; release not exposed by this endpoint)clinvar: https://www.ncbi.nlm.nih.gov/clinvar/?term=DKK3%5Bgene%5D — ClinVar build Build260809-1055.1gwas_traits: https://www.ebi.ac.uk/gwas/genes/DKK3 — GWAS Catalog search API (live; release not exposed)
Provenance
- Generated: 2026-08-14T02:17:42 · Tier: A
- Fully mechanical: every cell above is rendered from tool return values. No language model wrote any part of this dossier.
- MR estimates, where present, are retrieved from published work (EpiGraphDB pQTL, Zheng et al. Nat Genet 2020); nothing is computed here.
- Tool errors this run: none