1-palmitoyl-2-linoleoyl-gpc (16:0/18:2) to 1-lignoceroyl-gpc (24:0)

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

Metabolite Accession: GCST90199895
Name: 1-lignoceroyl-gpc (24:0)
Hmdb Id: HMDB0010405
Super Pathway: NA
Sub Pathway: NA
Inchikey: NA

Associated Genomic Regions

Region: rs102275

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Clumped rQTL variant

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SNP Summary

Chr:
11
Beta (Ratio):
0.400
Position:
61557803
SE (Ratio):
0.018
Effect Allele:
C
Z-score (Ratio):
21.680
Reference Allele:
T
-log10(P):
-238.315
MAF:
0.347
Beta (Num):
0.271
Novel Locus:
No
SE (Num):
0.016
Beta (Den):
-0.129
SE (Den):
0.016
No CNV overlap
rQTL cluster:
62
Reaction Distance:
NA
Closest Genes:
TMEM258 MYRF FEN1 FADS2 FADS1

Region: rs4500751

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Clumped rQTL variant

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SNP Summary

Chr:
16
Beta (Ratio):
0.155
Position:
15140211
SE (Ratio):
0.019
Effect Allele:
T
Z-score (Ratio):
8.108
Reference Allele:
C
-log10(P):
-35.202
MAF:
0.311
Beta (Num):
0.095
Novel Locus:
Yes ✔️
SE (Num):
0.016
Beta (Den):
-0.060
SE (Den):
0.017
No CNV overlap
rQTL cluster:
34
Reaction Distance:
NA
Closest Genes:
PDXDC1 NTAN1 RRN3 NPIPA1 NOMO1

LLM Analysis

Numerator Metabolite Explanation:

Glycerophospholipid metabolism, PUFA metabolism.7[1], 8[2]

Denominator Metabolite Explanation:

Glycerophospholipid metabolism, VLCFA metabolism.9[1], 10[2]

Ratio Explanation:

This ratio reflects the balance between phospholipid species containing polyunsaturated fatty acids (PUFAs), modulated by FADS activity, and those containing very-long-chain saturated fatty acids.4[1], 11[2]

Ratio Evidence:

metabolites related through biology

Gene Ratio Phenotype Relationship:

Genetic variants in FADS1, a key gene for PUFA synthesis, alter lipid metabolism and inflammation, which likely drives the association with metabolic phenotypes like hypercholesterolemia, cholelithiasis, and type 2 diabetes by altering pro- and anti-inflammatory lipid mediators.12[1], 13[2], 14[3]

Phenotype Driver:

Gene-centric:[FADS1]

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