sphingomyelin (d18:2/24:1, d18:1/24:2)* to 1-palmitoyl-2-docosahexaenoyl-gpc (16:0/22:6)

Numerator Metabolite

Metabolite Accession: GCST90200040
Name: sphingomyelin (d18:2/24:1, d18:1/24:2)*
Hmdb Id: NA
Super Pathway: NA
Sub Pathway: NA
Inchikey: NA

Denominator Metabolite

Structure of 1-palmitoyl-2-docosahexaenoyl-gpc (16:0/22:6)
Metabolite Accession: GCST90200043
Name: 1-palmitoyl-2-docosahexaenoyl-gpc (16:0/22:6)
Hmdb Id: HMDB0007991
Super Pathway: NA
Sub Pathway: NA
Inchikey: IESVDEZGAHUQJU

Associated Genomic Regions

Region: rs964184

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:
11
Beta (Ratio):
-0.197
Position:
116648917
SE (Ratio):
0.025
Effect Allele:
G
Z-score (Ratio):
-7.726
Reference Allele:
C
-log10(P):
-32.131
MAF:
0.131
Beta (Num):
-0.078
Novel Locus:
Yes ✔️
SE (Num):
0.021
Beta (Den):
0.119
SE (Den):
0.022
No CNV overlap
rQTL cluster:
248
Reaction Distance:
NA
Closest Genes:
ZNF259 BUD13 APOA5 APOA4 APOC3

LLM Analysis

Numerator Metabolite Explanation:

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

Denominator Metabolite Explanation:

Phosphatidylcholine biosynthesis.7[1], 8[2], 9[3]

Ratio Explanation:

The ratio reflects the balance between sphingolipid and specific phosphatidylcholine species, both integral to lipoprotein structure and signaling, influenced by apolipoprotein-mediated lipid transport.10[1], 11[2], 12[3]

Ratio Evidence:

metabolites related through biology

Gene Ratio Phenotype Relationship:

Genetic variants in the APOA1 gene cluster influence circulating lipid levels, including those of sphingomyelin and phosphatidylcholine, which are key components of lipoproteins.13[1], 14[2], 15[3] Altered levels of these lipids are associated with an increased risk of hypercholesterolemia, atherosclerosis, and myocardial infarction.1[4], 16[5], 17[6]

Phenotype Driver:

Gene-centric:APOA1

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