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 |
| Triglycerides |
0.548 |
0.0287 |
1.28e-81 |
Wald ratio |
1 |
trans |
NA |
| Non-cancer illness code self-reported: high cholesterol |
0.381 |
0.0273 |
2.78e-44 |
Wald ratio |
1 |
trans |
NA |
| Total cholesterol |
0.294 |
0.0301 |
1.63e-22 |
Wald ratio |
1 |
trans |
NA |
| HDL cholesterol |
-0.267 |
0.0296 |
1.88e-19 |
Wald ratio |
1 |
trans |
NA |
| LDL cholesterol |
0.202 |
0.0319 |
2.65e-10 |
Wald ratio |
1 |
trans |
NA |
| Ulcerative colitis |
-0.284 |
0.0797 |
3.57e-04 |
Wald ratio |
1 |
trans |
NA |
| Coronary heart disease |
0.209 |
0.0626 |
8.36e-04 |
Wald ratio |
1 |
trans |
NA |
| Sleep duration |
-0.0383 |
0.0115 |
9.12e-04 |
Wald ratio |
1 |
trans |
NA |
| ER-positive Breast cancer (Combined Oncoarray; iCOGS; GWAS meta analysis) |
-0.14 |
0.046 |
0.00237 |
Wald ratio |
1 |
trans |
NA |
| Non-cancer illness code self-reported: gout |
0.277 |
0.0949 |
0.00352 |
Wald ratio |
1 |
trans |
NA |
| Vascular or heart problems diagnosed by doctor: Angina |
0.195 |
0.0686 |
0.00452 |
Wald ratio |
1 |
trans |
NA |
| Inflammatory bowel disease |
-0.175 |
0.0624 |
0.00499 |
Wald ratio |
1 |
trans |
NA |
| …and 52 more outcomes (see JSON) |
|
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|
|
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|
2. pQTL instrument availability (Tier-B probe)
| Dataset |
Trait |
Author |
Year |
prot-c-3281_19_1 |
ANGL3 |
Suhre K |
2019 |
3. GWAS Catalog results — traits with signal at this locus
36 association rows across 19 traits (36 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 |
| Cholesterol to Total Lipids in Small HDL percentage |
6e-380 |
rs775677524 |
1 |
GCST90501235 |
no MR -> candidate analysis |
| Free Cholesterol to Total Lipids in IDL percentage |
2e-269 |
rs775677524 |
1 |
GCST90501126 |
no MR -> candidate analysis |
| Phospholipids to Total Lipids in Medium LDL percentage |
2e-133 |
rs775677524 |
1 |
GCST90501203 |
no MR -> candidate analysis |
| ANGPTL3 protein levels |
1e-86 |
rs72649573 |
1 |
GCST90468304 |
no MR -> candidate analysis |
| Circulating ANGPTL3 levels |
1e-84 |
rs72649573 |
1 |
GCST90860502 |
no MR -> candidate analysis |
| Apolipoprotein A levels (UKB data field 30630) |
5e-81 |
rs775677524 |
1 |
GCST90468061 |
no MR -> candidate analysis |
| Triglyceride levels |
1e-63 |
rs34483103 |
6 |
GCST90239662 |
no MR -> candidate analysis |
| Total cholesterol levels |
4e-59 |
rs34483103 |
5 |
GCST90239674 |
no MR -> candidate analysis |
| Apolipoprotein A1 levels |
5e-42 |
rs398122988 |
4 |
GCST90025955 |
no MR -> candidate analysis |
| Phosphatidylinositol(36:2)_[M-H]1- levels |
3e-34 |
rs10789117 |
1 |
GCST90060912 |
no MR -> candidate analysis |
| Angiopoietin-related protein 3 levels |
3e-23 |
rs72649573 |
1 |
GCST90246508 |
no MR -> candidate analysis |
| Low density lipoprotein cholesterol levels |
7e-22 |
rs34483103 |
1 |
GCST90239656 |
no MR -> candidate analysis |
| …and 7 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 495 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 |
| familial hypobetalipoproteinemia 2 |
0.849 |
— |
established (curated) |
no MR -> candidate analysis |
| Hypercholesterolemia |
0.568 |
0.453 |
multi-layer: burden+GWAS (allelic-series candidate) |
MR: beta=0.381, p=2.78e-44 (trans) |
| familial hypercholesterolemia |
0.296 |
0.296 |
exploratory rare-variant signal |
no MR -> candidate analysis |
| cardiovascular disorder |
0.364 |
— |
common-variant locus |
no MR -> candidate analysis |
| metabolic disease |
0.577 |
0.58 |
multi-layer: burden+GWAS (allelic-series candidate) |
no MR -> candidate analysis |
| hereditary disease |
0.68 |
— |
established (curated) |
no MR -> candidate analysis |
| genetic developmental and epileptic encephalopathy |
0.644 |
— |
established (curated) |
no MR -> candidate analysis |
| hyperlipidemia |
0.527 |
— |
common-variant locus |
no MR -> candidate analysis |
| Disorder of lipid metabolism |
0.413 |
0.431 |
multi-layer: burden+GWAS (allelic-series candidate) |
no MR -> candidate analysis |
| hypertriglyceridemia |
0.453 |
— |
common-variant locus |
no MR -> candidate analysis |
| metabolic dysfunction-associated steatotic liver disease |
0.431 |
— |
common-variant locus |
no MR -> candidate analysis |
| familial lipoprotein lipase deficiency |
0.458 |
— |
common-variant locus |
no MR -> candidate analysis |
| familial hyperlipidemia |
0.442 |
— |
common-variant locus |
no MR -> candidate analysis |
| small intestine neoplasm |
0.439 |
0.439 |
exploratory rare-variant signal |
no MR -> candidate analysis |
| coronary artery calcification |
0.431 |
— |
common-variant locus |
no MR -> candidate analysis |
Of the 15 rows above, 14 have no MR estimate in this resource. Across all retrieved diseases for this gene: 2 exploratory rare-variant signal(s), 3 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 |
1 known modulators (Angiopoietin-related protein 3) |
| gnomAD constraint |
pLI=2.6e-17, LOEUF=1.22 — LoF-tolerant |
| GWAS Catalog |
217 unique SNPs / 587 rows |
| ClinVar |
190 records; 5 pathogenic in sample of 30 |
| PharmGKB/ClinPGx |
no annotations |
phenome — Top 30 of 495 associated diseases by overall score. genetic_association aggregates GWAS common-variant AND rare-variant evidence. These are ASSOCIATIONS (loci), not causal claims.chembl — ChEMBL target matched by text search on ‘ANGPTL3’ and resolved to ‘Angiopoietin-related protein 3’ — confirm this is the intended target.clinvar — Pathogenic count is over the 30 record(s) retrieved, NOT over all 190 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 19 of 19 traits by best p-value, aggregated from 36 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/Q9Y5C1 — 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/ENSG00000132855/associations — Open Targets data release 26.06chembl: https://www.ebi.ac.uk/chembl/target_report_card/CHEMBL3710485/ — ChEMBL_37 (released 2026-05-01)gnomad: https://gnomad.broadinstitute.org/gene/ANGPTL3 — gnomAD constraint via GraphQL API (reference genome GRCh38)gwas: https://www.ebi.ac.uk/gwas/genes/ANGPTL3 — GWAS Catalog REST (live; release not exposed by this endpoint)clinvar: https://www.ncbi.nlm.nih.gov/clinvar/?term=ANGPTL3%5Bgene%5D — ClinVar build Build260809-1055.1gwas_traits: https://www.ebi.ac.uk/gwas/genes/ANGPTL3 — GWAS Catalog search API (live; release not exposed)
Provenance
- Generated: 2026-08-14T01:04:06 · 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