1-linolenoyl-gpc (18:3)* to threonine

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 threonine
Metabolite Accession: GCST90200432
Name: threonine
Hmdb Id: HMDB0000167
Super Pathway: NA
Sub Pathway: NA
Inchikey: AYFVYJQAPQTCCC

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):
0.208
Position:
27730940
SE (Ratio):
0.021
Effect Allele:
T
Z-score (Ratio):
9.737
Reference Allele:
C
-log10(P):
-49.920
MAF:
0.413
Beta (Num):
0.084
Novel Locus:
No
SE (Num):
0.016
Beta (Den):
-0.124
SE (Den):
0.016
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 metabolism.4[1], 5[2]

Denominator Metabolite Explanation:

Threonine degradation, Glycine and Serine metabolism.6[1], 7[2], 8[3]

Ratio Explanation:

An elevated ratio of 1-linolenoyl-gpc to threonine may reflect GCKR-driven shifts in hepatic metabolism, favoring glycerophospholipid synthesis and altering amino acid utilization.9[1]

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 and non-alcoholic fatty liver disease.1[1], 2[2], 3[3] This altered metabolic state is reflected in the levels of various metabolites, including lipids and amino acids.9[4]

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