1-(1-enyl-palmitoyl)-2-palmitoleoyl-gpc (p-16:0/16:1)* to 1-stearoyl-gpe (18:0)

Numerator Metabolite

Structure of 1-(1-enyl-palmitoyl)-2-palmitoleoyl-gpc (p-16:0/16:1)*
Metabolite Accession: GCST90200070
Name: 1-(1-enyl-palmitoyl)-2-palmitoleoyl-gpc (p-16:0/16:1)*
Hmdb Id: HMDB0011207
Super Pathway: NA
Sub Pathway: NA
Inchikey: FZMYLOBGNYZPQO

Denominator Metabolite

Structure of 1-stearoyl-gpe (18:0)
Metabolite Accession: GCST90199772
Name: 1-stearoyl-gpe (18:0)
Hmdb Id: HMDB0011130
Super Pathway: NA
Sub Pathway: NA
Inchikey: BBYWOYAFBUOUFP

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):
-0.186
Position:
27730940
SE (Ratio):
0.021
Effect Allele:
T
Z-score (Ratio):
-8.849
Reference Allele:
C
-log10(P):
-41.570
MAF:
0.414
Beta (Num):
-0.096
Novel Locus:
Yes ✔️
SE (Num):
0.015
Beta (Den):
0.090
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, Plasmalogen synthesis

Denominator Metabolite Explanation:

Glycerophospholipid metabolism, Phospholipid biosynthesis6[1], 7[2], 8[3], 9[4]

Ratio Explanation:

The ratio may reflect the balance between ether lipid synthesis and glycerophospholipid degradation, potentially influenced by GCKR's role in hepatic lipid metabolism.10[1], 11[2], 12[3]

Ratio Evidence:

metabolites related through biology

Gene Ratio Phenotype Relationship:

GCKR variants are associated with altered glucose and lipid metabolism, increasing the risk for type 2 diabetes, gout, and cholelithiasis.1[1], 10[2], 2[3], 3[4], 12[5], 13[6], 14[7] This suggests GCKR's regulatory function in the liver is a central driver of these phenotypes, with the metabolite ratio being one of its downstream consequences.

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