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

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 asparagine
Metabolite Accession: GCST90200452
Name: asparagine
Hmdb Id: HMDB0000168
Super Pathway: NA
Sub Pathway: NA
Inchikey: DCXYFEDJOCDNAF

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):
0.169
Position:
27730940
SE (Ratio):
0.021
Effect Allele:
T
Z-score (Ratio):
8.104
Reference Allele:
C
-log10(P):
-35.173
MAF:
0.413
Beta (Num):
0.084
Novel Locus:
Yes ✔️
SE (Num):
0.016
Beta (Den):
-0.085
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, Fatty acid metabolism.6[1]

Denominator Metabolite Explanation:

Asparagine metabolism, Amino acid metabolism.7[1], 8[2], 9[3], 10[4], 11[5]

Ratio Explanation:

A higher ratio may reflect a shift in hepatic metabolism, potentially driven by GCKR, favoring altered glucose handling and lipid synthesis over amino acid metabolism.

Ratio Evidence:

metabolites related through biology

Gene Ratio Phenotype Relationship:

GCKR variants can alter the balance of glucose and lipid metabolism in the liver, leading to phenotypes like hypercholesterolemia, cholelithiasis, and type 2 diabetes.1[1], 12[2], 3[3], 13[4], 14[5] The ratio of 1-linolenoyl-gpc to asparagine may reflect these metabolic shifts.

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