Protein Dossier — LPO (Lactoperoxidase)
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 |
| Non-cancer illness code self-reported: high cholesterol |
0.107 |
0.0308 |
4.85e-04 |
Wald ratio |
1 |
trans |
NA |
| Diagnoses - main ICD10: N20 Calculus of kidney and ureter |
0.315 |
0.112 |
0.00482 |
Wald ratio |
1 |
trans |
NA |
| Non-cancer illness code self-reported: migraine |
-0.258 |
0.0957 |
0.00708 |
Wald ratio |
1 |
trans |
NA |
| Diagnoses - main ICD10: M54 Dorsalgia |
0.206 |
0.0806 |
0.0106 |
Wald ratio |
1 |
trans |
NA |
| Diagnoses - main ICD10: K80 Cholelithiasis |
0.175 |
0.0745 |
0.0189 |
Wald ratio |
1 |
trans |
NA |
| Cancer code self-reported: small intestine or small bowel cancer |
0.737 |
0.323 |
0.0224 |
Wald ratio |
1 |
trans |
NA |
| Non-cancer illness code self-reported: psoriasis |
0.218 |
0.0969 |
0.0248 |
Wald ratio |
1 |
trans |
NA |
| Non-cancer illness code self-reported: iron deficiency anaemia |
0.296 |
0.132 |
0.0249 |
Wald ratio |
1 |
trans |
NA |
| Hearing difficulty or problems: Yes |
-0.0493 |
0.023 |
0.0319 |
Wald ratio |
1 |
trans |
NA |
| Fractured or broken bones in last 5 years |
0.0685 |
0.0369 |
0.0636 |
Wald ratio |
1 |
trans |
NA |
| Non-cancer illness code self-reported: uterine fibroids |
0.163 |
0.0877 |
0.0638 |
Wald ratio |
1 |
trans |
NA |
| Diagnoses - main ICD10: S66 Injury of muscle and tendon at wrist and hand level |
0.405 |
0.225 |
0.071 |
Wald ratio |
1 |
trans |
NA |
| …and 66 more outcomes (see JSON) |
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2. pQTL instrument availability (Tier-B probe)
| Dataset |
Trait |
Author |
Year |
prot-c-4801_13_3 |
PERL |
Suhre K |
2019 |
3. GWAS Catalog results — traits with signal at this locus
37 association rows across 24 traits (26 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 |
| LPO protein levels |
4e-101 |
rs368901060 |
3 |
GCST90469789 |
no MR -> candidate analysis |
| Lactoperoxidase levels |
4e-62 |
rs8178290 |
3 |
GCST90248228 |
no MR -> candidate analysis |
| Serum levels of protein LPO |
9e-38 |
rs62083746 |
1 |
GCST90088774 |
no MR -> candidate analysis |
| Cerebrospinal fluid protein LPO levels |
3e-33 |
rs7219860 |
1 |
GCST90943593 |
no MR -> candidate analysis |
| Eosinophil count |
5e-31 |
rs536070968 |
3 |
GCST90018733 |
no MR -> candidate analysis |
| Basophil count |
4e-28 |
rs546552332 |
1 |
GCST90002379 |
no MR -> candidate analysis |
| Monocyte percentage of white cells |
3e-19 |
rs8178414 |
1 |
GCST90002394 |
no MR -> candidate analysis |
| Basophil percentage of white cells |
4e-18 |
rs546552332 |
1 |
GCST90002380 |
no MR -> candidate analysis |
| Lactoperoxidase levels (LPO.4801.13.3) |
5e-18 |
rs11337012 |
1 |
GCST90241730 |
no MR -> candidate analysis |
| TNFRSF10C protein levels |
5e-16 |
rs8178414 |
1 |
GCST90470901 |
no MR -> candidate analysis |
| Basophil percentage of white cells variance |
2e-12 |
rs546552332 |
1 |
GCST90565688 |
no MR -> candidate analysis |
| Chromodomain Y-like protein 2 levels |
5e-12 |
rs8178340 |
1 |
GCST90246969 |
no MR -> candidate analysis |
| …and 12 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 2235 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 |
| Joubert syndrome |
0.901 |
— |
established (curated) |
no MR -> candidate analysis |
| Meckel syndrome |
0.9 |
— |
established (curated) |
no MR -> candidate analysis |
| Meckel syndrome, type 1 |
0.83 |
— |
established (curated) |
no MR -> candidate analysis |
| Bardet-Biedl syndrome 13 |
0.819 |
— |
established (curated) |
no MR -> candidate analysis |
| Joubert syndrome 28 |
0.67 |
— |
established (curated) |
no MR -> candidate analysis |
| hereditary disease |
0.3 |
— |
established (curated) |
no MR -> candidate analysis |
| Retinal dystrophy |
0.195 |
— |
established (curated) |
no MR -> candidate analysis |
Of the 7 rows above, 7 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 |
0 known modulators (Lactoperoxidase) |
| gnomAD constraint |
pLI=8.6e-25, LOEUF=1.25 — LoF-tolerant |
| GWAS Catalog |
102 unique SNPs / 212 rows |
| ClinVar |
139 records; 0 pathogenic in sample of 30 |
| PharmGKB/ClinPGx |
no annotations |
phenome — Top 30 of 2235 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 ‘LPO’ and resolved to ‘Lactoperoxidase’ — confirm this is the intended target.clinvar — Pathogenic count is over the 30 record(s) retrieved, NOT over all 139 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 24 traits by best p-value, aggregated from 37 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/P22079 — 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/ENSG00000167419/associations — Open Targets data release 26.06chembl: https://www.ebi.ac.uk/chembl/target_report_card/CHEMBL5898/ — ChEMBL_37 (released 2026-05-01)gnomad: https://gnomad.broadinstitute.org/gene/LPO — gnomAD constraint via GraphQL API (reference genome GRCh38)gwas: https://www.ebi.ac.uk/gwas/genes/LPO — GWAS Catalog REST (live; release not exposed by this endpoint)clinvar: https://www.ncbi.nlm.nih.gov/clinvar/?term=LPO%5Bgene%5D — ClinVar build Build260809-1055.1gwas_traits: https://www.ebi.ac.uk/gwas/genes/LPO — GWAS Catalog search API (live; release not exposed)
Provenance
- Generated: 2026-08-14T03:36:44 · 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