lignoceroyl sphingomyelin (d18:1/24:0) to sphingomyelin (d18:2/23:0, d18:1/23:1, d17:1/24:1)*

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: GCST90200033
Name: sphingomyelin (d18:2/23:0, d18:1/23:1, d17:1/24:1)*
Hmdb Id: NA
Super Pathway: NA
Sub Pathway: NA
Inchikey: NA

Associated Genomic Regions

Region: rs12897637

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:
14
Beta (Ratio):
-0.196
Position:
64239351
SE (Ratio):
0.020
Effect Allele:
C
Z-score (Ratio):
-9.928
Reference Allele:
T
-log10(P):
-51.817
MAF:
0.165
Beta (Num):
-0.066
Novel Locus:
No
SE (Num):
0.020
Beta (Den):
0.130
SE (Den):
0.018
No CNV overlap
rQTL cluster:
47
Reaction Distance:
NA
Closest Genes:
SGPP1 SYNE2 WDR89 PPP2R5E ESR2

LLM Analysis

Numerator Metabolite Explanation:

Sphingolipid metabolism.1[1]

Denominator Metabolite Explanation:

Sphingolipid metabolism.1[1]

Ratio Explanation:

This ratio reflects the balance in fatty acid composition of sphingomyelins.3[1] SGPP1 activity influences the substrate pool for synthesis of different sphingomyelin species.1[2], 2[3]

Ratio Evidence:

reaction where the ratio is shared through a pathway

Gene Ratio Phenotype Relationship:

SGPP1 modulates the balance of bioactive sphingolipids like ceramides and sphingosine-1-phosphate.1[1], 4[2] This balance is crucial for lipid and glucose homeostasis, linking SGPP1 to lipoprotein disorders, and altered triglyceride and HbA1c levels.5[3], 6[4], 7[5]

Phenotype Driver:

Gene-centric:SGPP1

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