Protein Dossier — LYVE1 (Lymphatic vessel endothelial hyaluronic acid receptor 1)
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: N40 Hyperplasia of prostate |
0.488 |
0.105 |
3.63e-06 |
Wald ratio |
1 |
cis |
NA |
| Hippocampus volume |
77.7 |
30.5 |
0.011 |
Wald ratio |
1 |
cis |
NA |
| Non-cancer illness code self-reported: uterine fibroids |
0.251 |
0.104 |
0.0155 |
Wald ratio |
1 |
cis |
NA |
| Height |
0.0542 |
0.0233 |
0.02 |
Wald ratio |
1 |
cis |
NA |
| Non-cancer illness code self-reported: iron deficiency anaemia |
0.368 |
0.159 |
0.0208 |
Wald ratio |
1 |
cis |
NA |
| Diagnoses - main ICD10: I83 Varicose veins of lower extremities |
0.209 |
0.0932 |
0.0248 |
Wald ratio |
1 |
cis |
NA |
| Non-cancer illness code self-reported: bladder problem (not cancer) |
0.338 |
0.157 |
0.0311 |
Wald ratio |
1 |
cis |
NA |
| Forearm bone mineral density |
-0.217 |
0.107 |
0.0423 |
Wald ratio |
1 |
cis |
NA |
| HbA1C |
-0.0607 |
0.0309 |
0.0494 |
Wald ratio |
1 |
cis |
NA |
| Birth weight |
-0.0485 |
0.0252 |
0.0543 |
Wald ratio |
1 |
cis |
NA |
| Primary sclerosing cholangitis |
-0.388 |
0.209 |
0.0629 |
Wald ratio |
1 |
cis |
NA |
| Cough on most days |
0.136 |
0.0735 |
0.0634 |
Wald ratio |
1 |
cis |
NA |
| …and 64 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-3206_4_2 |
LYVE1 |
Suhre K |
2019 |
3. GWAS Catalog results — traits with signal at this locus
18 association rows across 16 traits (9 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 |
| LYVE1 protein levels |
8e-88 |
rs114708736 |
3 |
GCST90469832 |
no MR -> candidate analysis |
| Serum levels of protein LYVE1 |
1e-19 |
rs116573529 |
1 |
GCST90088269 |
no MR -> candidate analysis |
| Lymphatic vessel endothelial hyaluronic acid receptor 1 leve |
7e-12 |
rs11042892 |
1 |
GCST90248369 |
no MR -> candidate analysis |
| Blood protein levels |
3e-11 |
rs114527818 |
1 |
GCST006585 |
no MR -> candidate analysis |
| Forced expiratory volume in 1 second (FEV1) |
5e-11 |
rs7115735 |
1 |
GCST90705070 |
no MR -> candidate analysis |
| Peak expiratory flow |
2e-9 |
rs7115735 |
1 |
GCST90244095 |
no MR -> candidate analysis |
| White blood cell count (monocyte) |
3e-8 |
rs76224505 |
1 |
GCST90026507 |
no MR -> candidate analysis |
| Gut microbiome abundance (class Bifidobacterium animalis (at |
5e-8 |
rs17403942 |
1 |
GCST90568939 |
no MR -> candidate analysis |
| Gut microbial network clusters (Salmon (at 1 year) x Any Bre |
1e-7 |
rs17403620 |
1 |
GCST90569450 |
no MR -> candidate analysis |
| Suicide behavior |
9e-7 |
rs3741042 |
1 |
GCST90244689 |
no MR -> candidate analysis |
| Crohn’s disease (Tractor method with European ancestry) |
1e-6 |
rs117479720 |
1 |
GCST90825978 |
no MR -> candidate analysis |
| Suicide |
3e-6 |
rs3741042 |
1 |
GCST90244688 |
no MR -> candidate analysis |
| …and 4 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 479 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 |
| hypothyroidism |
0.316 |
— |
common-variant locus |
MR: beta=-0.108, p=0.186 (cis) |
| thyroid gland disorder |
0.289 |
— |
common-variant locus |
no MR -> candidate analysis |
| Hashimoto thyroiditis |
0.289 |
— |
common-variant locus |
no MR -> candidate analysis |
| alcohol drinking |
0.239 |
— |
common-variant locus |
no MR -> candidate analysis |
| heart disorder |
0.076 |
— |
common-variant locus |
no MR -> candidate analysis |
| gallbladder disorder |
0.069 |
— |
common-variant locus |
no MR -> candidate analysis |
Of the 6 rows above, 5 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 |
not available |
| GWAS Catalog |
93 unique SNPs / 173 rows |
| ClinVar |
69 records; 0 pathogenic in sample of 30 |
| PharmGKB/ClinPGx |
no annotations |
phenome — Top 30 of 479 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 ‘LYVE1’.clinvar — Pathogenic count is over the 30 record(s) retrieved, NOT over all 69 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 16 of 16 traits by best p-value, aggregated from 18 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/Q9Y5Y7 — 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/ENSG00000133800/associations — Open Targets data release 26.06gwas: https://www.ebi.ac.uk/gwas/genes/LYVE1 — GWAS Catalog REST (live; release not exposed by this endpoint)clinvar: https://www.ncbi.nlm.nih.gov/clinvar/?term=LYVE1%5Bgene%5D — ClinVar build Build260809-1055.1gwas_traits: https://www.ebi.ac.uk/gwas/genes/LYVE1 — GWAS Catalog search API (live; release not exposed)
Provenance
- Generated: 2026-08-14T03:40:16 · 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: gnomad