1-linolenoyl-gpc (18:3)* to 1-(1-enyl-palmitoyl)-2-palmitoleoyl-gpc (p-16:0/16:1)*

Numerator Metabolite

Structure of 1-linolenoyl-gpc (18:3)*
Metabolite Accession: GCST90199958
Name: 1-linolenoyl-gpc (18:3)*
Hmdb Id: HMDB0010388
Super Pathway: NA
Sub Pathway: NA
Inchikey: WKQNRCYKYCKESD

Denominator 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

Associated Genomic Regions

Region: rs1260326

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:
2
Beta (Ratio):
0.180
Position:
27730940
SE (Ratio):
0.021
Effect Allele:
T
Z-score (Ratio):
8.673
Reference Allele:
C
-log10(P):
-40.009
MAF:
0.413
Beta (Num):
0.084
Novel Locus:
Yes ✔️
SE (Num):
0.016
Beta (Den):
-0.096
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:

Glycerophospholipid metabolism, Lysophospholipid biosynthesis.4[1], 5[2], 6[3]

Denominator Metabolite Explanation:

Ether lipid metabolism, Plasmalogen synthesis.7[1], 8[2]

Ratio Explanation:

The ratio of 1-linolenoyl-gpc to a plasmalogen may reflect PLB1 activity, comparing a hydrolysis product (numerator) to another phospholipid class, indicating altered membrane remodeling.1[1], 4[2], 8[3]

Ratio Evidence:

metabolites related through biology

Gene Ratio Phenotype Relationship:

Genetic variation in GCKR and PLB1 alters glucose and lipid metabolism, reflected in the ratio.9[1], 10[2], 11[3] This dysregulation contributes to the pathophysiology of associated metabolic diseases, including hypercholesterolemia, gout, and type 2 diabetes, by affecting lipid signaling and membrane function.12[4], 13[5], 14[6]

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