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

Numerator Metabolite

Structure of 1-(1-enyl-palmitoyl)-2-oleoyl-gpc (p-16:0/18:1)*
Metabolite Accession: GCST90200057
Name: 1-(1-enyl-palmitoyl)-2-oleoyl-gpc (p-16:0/18:1)*
Hmdb Id: HMDB0007996
Super Pathway: NA
Sub Pathway: NA
Inchikey: MPQGNHKVOVYEEN

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

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SNP Summary

Chr:
2
Beta (Ratio):
-0.179
Position:
27730940
SE (Ratio):
0.021
Effect Allele:
T
Z-score (Ratio):
-8.643
Reference Allele:
C
-log10(P):
-39.744
MAF:
0.413
Beta (Num):
-0.090
Novel Locus:
Yes ✔️
SE (Num):
0.015
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, Plasmalogen biosynthesis.7[1], 8[2], 9[3], 10[4]

Denominator Metabolite Explanation:

Glycerophospholipid metabolism, Lysophospholipid signaling.1[1], 11[2], 12[3]

Ratio Explanation:

The ratio likely reflects phospholipase activity, where genetic variants in PLB1 may alter the degradation of plasmalogens relative to the formation of lysophosphatidylcholines.1[1], 13[2]

Ratio Evidence:

reaction where the ratio is shared through a pathway

Gene Ratio Phenotype Relationship:

Genetic variation in GCKR and PLB1 likely alters glycerophospholipid and glucose metabolism, reflected by the ratio.14[1], 15[2], 16[3], 17[4] This dysregulation of lipid signaling and membrane composition contributes to metabolic phenotypes like Type 2 diabetes, dyslipidemia, and cholelithiasis, which are strongly associated with these genes.15[5], 16[6], 18[7], 19[8]

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