1-(1-enyl-palmitoyl)-2-palmitoyl-gpc (p-16:0/16:0)* to 1-palmitoleoyl-gpc (16:1)*

Numerator Metabolite

Structure of 1-(1-enyl-palmitoyl)-2-palmitoyl-gpc (p-16:0/16:0)*
Metabolite Accession: GCST90200083
Name: 1-(1-enyl-palmitoyl)-2-palmitoyl-gpc (p-16:0/16:0)*
Hmdb Id: HMDB0011206
Super Pathway: NA
Sub Pathway: NA
Inchikey: PEWXKAOBUSBJLD

Denominator Metabolite

Structure of 1-palmitoleoyl-gpc (16:1)*
Metabolite Accession: GCST90199777
Name: 1-palmitoleoyl-gpc (16:1)*
Hmdb Id: HMDB0010383
Super Pathway: NA
Sub Pathway: NA
Inchikey: LFUDDCMNKWEORN

Associated Genomic Regions

Region: rs1260326

Click a 'Plot' button in the tables to the right to view a locus plot here.

Clumped rQTL variant

Loading Ratio Plot...

Loading Numerator Plot...

Loading Denominator Plot...

SNP Summary

Chr:
2
Beta (Ratio):
-0.176
Position:
27730940
SE (Ratio):
0.021
Effect Allele:
T
Z-score (Ratio):
-8.522
Reference Allele:
C
-log10(P):
-38.692
MAF:
0.412
Beta (Num):
-0.088
Novel Locus:
Yes ✔️
SE (Num):
0.016
Beta (Den):
0.088
SE (Den):
0.015
No CNV overlap
rQTL cluster:
152
Reaction Distance:
NA
Closest Genes:
GCKR FNDC4 IFT172 AC109829.1 KRTCAP3

LLM Analysis

Numerator Metabolite Explanation:

Ether lipid metabolism, Glycerophospholipid metabolism

Denominator Metabolite Explanation:

Glycerophospholipid metabolism

Ratio Explanation:

The ratio reflects the balance between plasmalogen and lysophosphatidylcholine species, which can be influenced by phospholipase activity.

Ratio Evidence:

metabolites not in a pathway but enzyme catalyzes one metabolite

Gene Ratio Phenotype Relationship:

GCKR variants are associated with altered glucose and lipid metabolism, increasing the risk for non-alcoholic fatty liver disease and dyslipidemia.4[1], 5[2], 6[3] The metabolite ratio may reflect these downstream metabolic perturbations, contributing to the observed cardiometabolic and liver-related phenotypes.

Phenotype Driver:

Gene-centric:GCKR

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