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

Numerator 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

Denominator Metabolite

Structure of 1-palmitoleoyl-2-linolenoyl-gpc (16:1/18:3)*
Metabolite Accession: GCST90200102
Name: 1-palmitoleoyl-2-linolenoyl-gpc (16:1/18:3)*
Hmdb Id: HMDB0008008
Super Pathway: NA
Sub Pathway: NA
Inchikey: MMUCLZZSNHBNFL

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):
0.211
Position:
15150505
SE (Ratio):
0.017
Effect Allele:
A
Z-score (Ratio):
12.666
Reference Allele:
C
-log10(P):
-82.983
MAF:
0.291
Beta (Num):
0.162
Novel Locus:
No
SE (Num):
0.017
Beta (Den):
-0.049
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:

Phosphatidylcholine biosynthesis, fatty acid metabolism.4[1], 5[2]

Denominator Metabolite Explanation:

Phosphatidylcholine biosynthesis, fatty acid metabolism.6[1], 7[2]

Ratio Explanation:

This ratio compares two phosphatidylcholine species, likely reflecting differential activity of fatty acid elongase and desaturase enzymes or broader lipidome remodeling.

Ratio Evidence:

metabolites related through biology

Gene Ratio Phenotype Relationship:

Genetic factors at the NOMO1 locus are linked to HDL and triglyceride levels. NOMO1's role in maintaining the endoplasmic reticulum, the primary site of lipid synthesis, suggests it influences the phosphatidylcholine profile, which in turn may affect lipoprotein metabolism.1[1], 8[2], 9[3]

Phenotype Driver:

Gene-centric:NOMO1

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