1-linoleoyl-gpe (18:2)* to glycerophosphorylcholine (gpc)

Numerator Metabolite

Structure of 1-linoleoyl-gpe (18:2)*
Metabolite Accession: GCST90199793
Name: 1-linoleoyl-gpe (18:2)*
Hmdb Id: HMDB0011507
Super Pathway: NA
Sub Pathway: NA
Inchikey: DBHKHNGBVGWQJE

Denominator Metabolite

Structure of glycerophosphorylcholine (gpc)
Metabolite Accession: GCST90199629
Name: glycerophosphorylcholine (gpc)
Hmdb Id: HMDB0000086
Super Pathway: NA
Sub Pathway: NA
Inchikey: SUHOQUVVVLNYQR

Associated Genomic Regions

Region: rs174546

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):
0.339
Position:
61569830
SE (Ratio):
0.017
Effect Allele:
T
Z-score (Ratio):
19.684
Reference Allele:
C
-log10(P):
-196.944
MAF:
0.339
Beta (Num):
0.283
Novel Locus:
No
SE (Num):
0.016
Beta (Den):
-0.055
SE (Den):
0.016
No CNV overlap
rQTL cluster:
62
Reaction Distance:
NA
Closest Genes:
FADS2 FADS1 FEN1 TMEM258 MYRF

LLM Analysis

Numerator Metabolite Explanation:

Lysophospholipid Biosynthesis

Denominator Metabolite Explanation:

Glycerophospholipid metabolism4[1]

Ratio Explanation:

The ratio reflects the balance between glycerophospholipid breakdown, yielding GPC, and the synthesis of lysophospholipids, influenced by FADS1/2 activity on fatty acid precursors.

Ratio Evidence:

metabolites not in a pathway but enzyme catalyzes one metabolite

Gene Ratio Phenotype Relationship:

Genetic variants in FADS1/FADS2 alter polyunsaturated fatty acid metabolism.1[1], 2[2], 3[3] This dysregulation, potentially affecting inflammatory pathways and cell membrane composition, is linked to an increased risk for follicular cysts of the skin, which can be influenced by inflammatory conditions.5[4], 6[5]

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