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

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

Metabolite Accession: GCST90200077
Name: 1-stearoyl-2-oleoyl-gpi (18:0/18:1)*
Hmdb Id: NA
Super Pathway: NA
Sub Pathway: NA
Inchikey: NA

Associated Genomic Regions

Region: rs174536

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Clumped rQTL variant

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SNP Summary

Chr:
11
Beta (Ratio):
-0.193
Position:
61551927
SE (Ratio):
0.018
Effect Allele:
C
Z-score (Ratio):
-10.578
Reference Allele:
A
-log10(P):
-58.539
MAF:
0.341
Beta (Num):
-0.066
Novel Locus:
No
SE (Num):
0.016
Beta (Den):
0.127
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):
0.031
Effect Allele:
T
Z-score (Ratio):
-9.162
Reference Allele:
C
-log10(P):
-44.428
MAF:
0.084
Beta (Num):
-0.156
Novel Locus:
Yes ✔️
SE (Num):
0.027
Beta (Den):
0.130
SE (Den):
0.027
No CNV overlap
rQTL cluster:
8
Reaction Distance:
NA
Closest Genes:
APOE TOMM40 APOC1 PVRL2 APOC4

LLM Analysis

Numerator Metabolite Explanation:

Sphingolipid metabolism.4[1], 5[2], 6[3]

Denominator Metabolite Explanation:

GPI-anchor biosynthesis, Glycerophospholipid metabolism.7[1], 8[2], 9[3]

Ratio Explanation:

This ratio may reflect the balance between structural membrane lipids (sphingomyelin) and signaling/protein-anchoring lipids (GPI), modulated by apolipoprotein-mediated lipid transport.10[1], 11[2]

Ratio Evidence:

metabolites related through biology

Gene Ratio Phenotype Relationship:

Variants in the APOE/APOC1 gene cluster alter lipoprotein metabolism, affecting the systemic transport and balance of various lipids, which contributes to dyslipidemia and increases the risk of associated cardiovascular phenotypes like coronary atherosclerosis and myocardial infarction.12[1], 13[2], 14[3], 15[4]

Phenotype Driver:

Gene-centric:APOE/APOC1

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