1-oleoyl-2-linoleoyl-gpe (18:1/18:2)* to 1-palmitoyl-2-dihomo-linolenoyl-gpc (16:0/20:3n3 or 6)*

Numerator Metabolite

Metabolite Accession: GCST90200082
Name: 1-oleoyl-2-linoleoyl-gpe (18:1/18:2)*
Hmdb Id: HMDB0005349
Super Pathway: NA
Sub Pathway: NA
Inchikey: NA

Denominator Metabolite

Metabolite Accession: GCST90200051
Name: 1-palmitoyl-2-dihomo-linolenoyl-gpc (16:0/20:3n3 or 6)*
Hmdb Id: NA
Super Pathway: NA
Sub Pathway: NA
Inchikey: NA

Associated Genomic Regions

Region: rs12928099

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:
16
Beta (Ratio):
-0.252
Position:
15150505
SE (Ratio):
0.020
Effect Allele:
A
Z-score (Ratio):
-12.729
Reference Allele:
C
-log10(P):
-83.786
MAF:
0.290
Beta (Num):
-0.090
Novel Locus:
No
SE (Num):
0.017
Beta (Den):
0.162
SE (Den):
0.017
No CNV overlap
rQTL cluster:
34
Reaction Distance:
NA
Closest Genes:
PDXDC1 NTAN1 RRN3 NPIPA1 NOMO1

LLM Analysis

Numerator Metabolite Explanation:

Phosphatidylethanolamine (PE) synthesis.5[1], 6[2]

Denominator Metabolite Explanation:

Phosphatidylcholine (PC) synthesis.7[1], 8[2]

Ratio Explanation:

The ratio reflects the balance between major phospholipid classes, phosphatidylethanolamine (PE) and phosphatidylcholine (PC), but a direct regulatory link to the associated genes is not established.

Ratio Evidence:

metabolites unrelated

Gene Ratio Phenotype Relationship:

PDXDC1 has been associated with triglyceride levels and NAFLD, suggesting a potential link between the gene, altered lipid metabolism reflected by the PE/PC ratio, and the observed phenotype of altered triglycerides and HDL-cholesterol.9[1], 10[2], 11[3]

Phenotype Driver:

Gene-centric:PDXDC1

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