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

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

Structure of 1,2-dipalmitoyl-gpc (16:0/16:0)
Metabolite Accession: GCST90199660
Name: 1,2-dipalmitoyl-gpc (16:0/16:0)
Hmdb Id: HMDB0000564
Super Pathway: NA
Sub Pathway: NA
Inchikey: KILNVBDSWZSGLL

Associated Genomic Regions

Region: rs102275

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Clumped rQTL variant

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SNP Summary

Chr:
11
Beta (Ratio):
0.492
Position:
61557803
SE (Ratio):
0.017
Effect Allele:
C
Z-score (Ratio):
28.116
Reference Allele:
T
-log10(P):
-398.813
MAF:
0.347
Beta (Num):
0.271
Novel Locus:
No
SE (Num):
0.016
Beta (Den):
-0.221
SE (Den):
0.016
No CNV overlap
rQTL cluster:
62
Reaction Distance:
NA
Closest Genes:
TMEM258 MYRF FEN1 FADS2 FADS1

Region: rs12928099

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Clumped rQTL variant

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SNP Summary

Chr:
16
Beta (Ratio):
-0.170
Position:
15150505
SE (Ratio):
0.019
Effect Allele:
A
Z-score (Ratio):
-9.145
Reference Allele:
C
-log10(P):
-44.262
MAF:
0.291
Beta (Num):
-0.097
Novel Locus:
Yes ✔️
SE (Num):
0.017
Beta (Den):
0.073
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, Phosphatidylcholine biosynthesis.8[1], 9[2], 10[3]

Denominator Metabolite Explanation:

Glycerophospholipid metabolism, Phosphatidylcholine biosynthesis.11[1], 12[2], 13[3]

Ratio Explanation:

This ratio may reflect fatty acid desaturase (FADS) activity, comparing the incorporation of linoleic acid (18:2) versus saturated palmitic acid into phosphatidylcholines.14[1], 15[2]

Ratio Evidence:

reaction where the ratio is shared through a pathway

Gene Ratio Phenotype Relationship:

Genetic variants in FADS1 alter its desaturase activity, changing the balance of polyunsaturated fatty acids reflected in the ratio.5[1], 16[2] This dysregulation influences inflammation and lipid metabolism, contributing to phenotypes like psoriasis, pure hypercholesterolaemia, and cholelithiasis which are associated with the ratio.7[3], 17[4], 18[5]

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