1-palmitoyl-2-linoleoyl-gpc (16:0/18:2) to cholesterol

Numerator Metabolite

Structure of 1-palmitoyl-2-linoleoyl-gpc (16:0/18:2)
Metabolite Accession: GCST90200330
Name: 1-palmitoyl-2-linoleoyl-gpc (16:0/18:2)
Hmdb Id: HMDB0007973
Super Pathway: NA
Sub Pathway: NA
Inchikey: JLPULHDHAOZNQI

Denominator Metabolite

Structure of cholesterol
Metabolite Accession: GCST90200368
Name: cholesterol
Hmdb Id: HMDB0000067
Super Pathway: NA
Sub Pathway: NA
Inchikey: HVYWMOMLDIMFJA

Associated Genomic Regions

Region: rs102275

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:
11
Beta (Ratio):
0.316
Position:
61557803
SE (Ratio):
0.015
Effect Allele:
C
Z-score (Ratio):
20.956
Reference Allele:
T
-log10(P):
-222.839
MAF:
0.347
Beta (Num):
0.271
Novel Locus:
No
SE (Num):
0.016
Beta (Den):
-0.045
SE (Den):
0.016
No CNV overlap
rQTL cluster:
62
Reaction Distance:
NA
Closest Genes:
TMEM258 MYRF FEN1 FADS2 FADS1

LLM Analysis

Numerator Metabolite Explanation:

Glycerophospholipid metabolism, Fatty acid metabolism.5[1]

Denominator Metabolite Explanation:

Mevalonate pathway, Cholesterol biosynthesis.6[1], 7[2], 8[3], 9[4], 10[5]

Ratio Explanation:

The ratio reflects the balance between glycerophospholipid synthesis, incorporating fatty acids influenced by FADS enzymes, and cholesterol synthesis. Altered FADS activity impacts this balance.

Ratio Evidence:

metabolites not in a pathway but enzyme catalyzes one metabolite

Gene Ratio Phenotype Relationship:

Genetic variants in FADS1/FADS2 alter fatty acid desaturation, affecting the composition of glycerophospholipids like the numerator.3[1], 11[2] This dysregulation of lipid metabolism is linked to hypercholesterolemia and cholelithiasis, likely through interconnected lipid synthesis and transport pathways.12[3], 13[4], 14[5], 15[6]

Phenotype Driver:

Gene-centric:FADS1/FADS2

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