lignoceroyl sphingomyelin (d18:1/24:0) to 1-(1-enyl-palmitoyl)-2-arachidonoyl-gpc (p-16:0/20:4)*

Numerator Metabolite

Structure of lignoceroyl sphingomyelin (d18:1/24:0)
Metabolite Accession: GCST90200020
Name: lignoceroyl sphingomyelin (d18:1/24:0)
Hmdb Id: HMDB0011697
Super Pathway: NA
Sub Pathway: NA
Inchikey: QEDPUVGSSDPBMD

Denominator Metabolite

Structure of 1-(1-enyl-palmitoyl)-2-arachidonoyl-gpc (p-16:0/20:4)*
Metabolite Accession: GCST90200052
Name: 1-(1-enyl-palmitoyl)-2-arachidonoyl-gpc (p-16:0/20:4)*
Hmdb Id: HMDB0011220
Super Pathway: NA
Sub Pathway: NA
Inchikey: IOYKZPNDXIIXLN

Associated Genomic Regions

Region: rs7412

Click a 'Plot' button in the tables to the right to view a locus plot here.

Clumped rQTL variant

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SNP Summary

Chr:
19
Beta (Ratio):
-0.282
Position:
45412079
SE (Ratio):
0.035
Effect Allele:
T
Z-score (Ratio):
-8.091
Reference Allele:
C
-log10(P):
-35.062
MAF:
0.084
Beta (Num):
-0.156
Novel Locus:
Yes ✔️
SE (Num):
0.027
Beta (Den):
0.126
SE (Den):
0.028
No CNV overlap
rQTL cluster:
8
Reaction Distance:
NA
Closest Genes:
APOE TOMM40 APOC1 PVRL2 APOC4

LLM Analysis

Numerator Metabolite Explanation:

Sphingolipid metabolism.7[1], 8[2]

Denominator Metabolite Explanation:

Glycerophospholipid metabolism / Ether lipid metabolism.9[1], 10[2]

Ratio Explanation:

Ratio likely reflects APOE's role in the differential transport and metabolism of sphingolipids and ether phospholipids within lipoprotein particles.11[1], 12[2], 13[3]

Ratio Evidence:

metabolites related through biology

Gene Ratio Phenotype Relationship:

APOE genetic variants alter lipoprotein metabolism, reflected by the lipid ratio, leading to dyslipidemia (e.g., pure hypercholesterolaemia), a key risk factor for associated cardiovascular phenotypes like myocardial infarction and atherosclerosis.14[1], 15[2], 16[3]

Phenotype Driver:

Gene-centric:APOE

Downloads

Download the full rQTL summary statistics file for this metabolite ratio. Data contains the loci listed here. For each SNP (chromosome, effect_allele, reference_allele, pos_name, position) these columns contain the summary statistics of the ratio (beta, pgain, pval, se, z), the numerator metabolite (beta_1, pval_1, n_iids_1, effect_allele_frequency_1, se_1, z_1) and the denominator metabolite (beta_2, pval_2, n_iids_2, effect_allele_frequency_2, se_2, z_2)

Download rQTL Data