lignoceroyl sphingomyelin (d18:1/24:0) to 1-palmitoyl-2-oleoyl-gpi (16:0/18:1)*

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-palmitoyl-2-oleoyl-gpi (16:0/18:1)*
Metabolite Accession: GCST90200080
Name: 1-palmitoyl-2-oleoyl-gpi (16:0/18:1)*
Hmdb Id: HMDB0009783
Super Pathway: NA
Sub Pathway: NA
Inchikey: PDLAMJKMOKWLAJ

Associated Genomic Regions

Region: rs174536

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Clumped rQTL variant

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SNP Summary

Chr:
11
Beta (Ratio):
-0.167
Position:
61551927
SE (Ratio):
0.019
Effect Allele:
C
Z-score (Ratio):
-8.627
Reference Allele:
A
-log10(P):
-39.610
MAF:
0.341
Beta (Num):
-0.066
Novel Locus:
Yes ✔️
SE (Num):
0.016
Beta (Den):
0.102
SE (Den):
0.016
No CNV overlap
rQTL cluster:
62
Reaction Distance:
NA
Closest Genes:
TMEM258 MYRF FEN1 FADS2 FADS1

Region: rs7412

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Clumped rQTL variant

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SNP Summary

Chr:
19
Beta (Ratio):
-0.286
Position:
45412079
SE (Ratio):
0.033
Effect Allele:
T
Z-score (Ratio):
-8.639
Reference Allele:
C
-log10(P):
-39.710
MAF:
0.084
Beta (Num):
-0.156
Novel Locus:
Yes ✔️
SE (Num):
0.027
Beta (Den):
0.130
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, ceramide synthesis.5[1], 6[2]

Denominator Metabolite Explanation:

Glycosylphosphatidylinositol (GPI)-anchor biosynthesis.7[1], 8[2]

Ratio Explanation:

This ratio contrasts a very-long-chain sphingolipid with a GPI-anchor; genetic links to *APOE* suggest it may reflect lipid composition within lipoprotein particles.

Ratio Evidence:

metabolites related through biology

Gene Ratio Phenotype Relationship:

*APOE* genetic variants alter lipoprotein metabolism, modifying the circulating composition of complex lipids, reflected by this ratio. This lipid dysregulation is a well-established causal factor for dyslipidemia, coronary atherosclerosis, and myocardial infarction, which are the strongly associated phenotypes observed.4[1], 9[2], 10[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