Protein Dossier — LYZ (Lysozyme C)
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 |
| Body mass index (BMI) |
0.0218 |
0.00509 |
1.83e-05 |
Wald ratio |
1 |
cis |
NA |
| Non-cancer illness code self-reported: hypertension |
0.0331 |
0.00839 |
7.92e-05 |
Wald ratio |
1 |
cis |
NA |
| Non-cancer illness code self-reported: high cholesterol |
0.044 |
0.0132 |
8.40e-04 |
Wald ratio |
1 |
cis |
NA |
| Bulimia nervosa |
-0.0422 |
0.0148 |
0.00427 |
Wald ratio |
1 |
cis |
NA |
| Forced vital capacity (FVC) |
-0.0117 |
0.00418 |
0.00527 |
Wald ratio |
1 |
cis |
NA |
| Non-cancer illness code self-reported: osteoarthritis |
0.045 |
0.0163 |
0.00568 |
Wald ratio |
1 |
cis |
NA |
| Sodium in urine |
0.0137 |
0.00501 |
0.00635 |
Wald ratio |
1 |
cis |
NA |
| Height |
-0.0169 |
0.00634 |
0.00766 |
Wald ratio |
1 |
cis |
NA |
| Squamous cell lung cancer |
0.144 |
0.0543 |
0.00804 |
Wald ratio |
1 |
cis |
NA |
| Lung cancer |
0.0854 |
0.0362 |
0.0183 |
Wald ratio |
1 |
cis |
NA |
| Diagnoses - main ICD10: R07 Pain in throat and chest |
0.0508 |
0.0216 |
0.0186 |
Wald ratio |
1 |
cis |
NA |
| Paget’s disease |
-0.274 |
0.127 |
0.0309 |
Wald ratio |
1 |
cis |
NA |
| …and 102 more outcomes (see JSON) |
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|
|
|
|
|
|
2. pQTL instrument availability (Tier-B probe)
| Dataset |
Trait |
Author |
Year |
prot-c-4920_10_1 |
Lysozyme |
Suhre K |
2019 |
3. GWAS Catalog results — traits with signal at this locus
157 association rows across 107 traits (150 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 |
| Lysozyme C levels |
4e-543 |
rs4761234 |
9 |
GCST90248359 |
no MR -> candidate analysis |
| Serum levels of protein LYZ |
8e-200 |
rs4761234 |
1 |
GCST90088815 |
no MR -> candidate analysis |
| Monocyte count |
2e-187 |
rs1800973 |
6 |
GCST90002340 |
no MR -> candidate analysis |
| Monocyte count (UKB data field 30130) |
8e-173 |
rs1800973 |
2 |
GCST90468090 |
no MR -> candidate analysis |
| Hematological traits (multi-trait analysis) |
7e-164 |
rs1800973 |
2 |
GCST90838669 |
no MR -> candidate analysis |
| Monocyte percentage (UKB data field 30190) |
2e-154 |
rs1800973 |
1 |
GCST90468091 |
no MR -> candidate analysis |
| Monocyte side fluorescence |
1e-147 |
rs1800973 |
1 |
GCST90281241 |
no MR -> candidate analysis |
| SSC-A on monocyte |
2e-145 |
rs1800973 |
2 |
GCST90002073 |
no MR -> candidate analysis |
| Monocyte percentage of white cells |
7e-139 |
rs1800973 |
2 |
GCST90002394 |
no MR -> candidate analysis |
| SSC-A on CD14+ monocyte |
3e-114 |
rs1800973 |
2 |
GCST90002074 |
no MR -> candidate analysis |
| Blood protein levels |
3e-104 |
rs4761234 |
1 |
GCST006585 |
no MR -> candidate analysis |
| Lysozyme C levels (LYZ.4920.10.1) |
4e-89 |
rs4761234 |
2 |
GCST90241848 |
no MR -> candidate analysis |
| …and 95 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 1282 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 visceral amyloidosis |
0.756 |
— |
established (curated) |
no MR -> candidate analysis |
| Familial renal amyloidosis |
0.756 |
— |
established (curated) |
no MR -> candidate analysis |
| amyloidosis, hereditary systemic 5 |
0.753 |
— |
established (curated) |
no MR -> candidate analysis |
| Oral ulcer |
0.795 |
— |
common-variant locus |
no MR -> candidate analysis |
| hypertensive disorder |
0.749 |
— |
common-variant locus |
no MR -> candidate analysis |
| ALys amyloidosis |
0.608 |
— |
established (curated) |
no MR -> candidate analysis |
| Familial renal amyloidosis due to lysozyme variant |
0.608 |
— |
established (curated) |
no MR -> candidate analysis |
| alcohol drinking |
0.39 |
— |
common-variant locus |
no MR -> candidate analysis |
| seasonal allergic rhinitis |
0.39 |
— |
common-variant locus |
no MR -> candidate analysis |
| drug allergy |
0.378 |
— |
common-variant locus |
no MR -> candidate analysis |
| hereditary disease |
0.3 |
— |
established (curated) |
no MR -> candidate analysis |
| Pain |
0.232 |
— |
common-variant locus |
MR: beta=0.0508, p=0.0186 (cis) |
| cervical carcinoma |
0.115 |
— |
common-variant locus |
no MR -> candidate analysis |
Of the 13 rows above, 12 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 (Lysozyme C) |
| gnomAD constraint |
pLI=1.5e-07, LOEUF=1.69 — LoF-tolerant |
| GWAS Catalog |
94 unique SNPs / 188 rows |
| ClinVar |
118 records; 2 pathogenic in sample of 30 |
| PharmGKB/ClinPGx |
no annotations |
phenome — Top 30 of 1282 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 ‘LYZ’ and resolved to ‘Lysozyme C’ — confirm this is the intended target.clinvar — Pathogenic count is over the 30 record(s) retrieved, NOT over all 118 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 107 traits by best p-value, aggregated from 157 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/P61626 — 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/ENSG00000090382/associations — Open Targets data release 26.06chembl: https://www.ebi.ac.uk/chembl/target_report_card/CHEMBL2297/ — ChEMBL_37 (released 2026-05-01)gnomad: https://gnomad.broadinstitute.org/gene/LYZ — gnomAD constraint via GraphQL API (reference genome GRCh38)gwas: https://www.ebi.ac.uk/gwas/genes/LYZ — GWAS Catalog REST (live; release not exposed by this endpoint)clinvar: https://www.ncbi.nlm.nih.gov/clinvar/?term=LYZ%5Bgene%5D — ClinVar build Build260809-1055.1gwas_traits: https://www.ebi.ac.uk/gwas/genes/LYZ — GWAS Catalog search API (live; release not exposed)
Provenance
- Generated: 2026-08-14T03:40:31 · 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