1-(1-enyl-palmitoyl)-2-palmitoyl-gpc (p-16:0/16:0)* to 1-palmitoleoyl-2-linolenoyl-gpc (16:1/18:3)*

Numerator Metabolite

Structure of 1-(1-enyl-palmitoyl)-2-palmitoyl-gpc (p-16:0/16:0)*
Metabolite Accession: GCST90200083
Name: 1-(1-enyl-palmitoyl)-2-palmitoyl-gpc (p-16:0/16:0)*
Hmdb Id: HMDB0011206
Super Pathway: NA
Sub Pathway: NA
Inchikey: PEWXKAOBUSBJLD

Denominator Metabolite

Structure of 1-palmitoleoyl-2-linolenoyl-gpc (16:1/18:3)*
Metabolite Accession: GCST90200102
Name: 1-palmitoleoyl-2-linolenoyl-gpc (16:1/18:3)*
Hmdb Id: HMDB0008008
Super Pathway: NA
Sub Pathway: NA
Inchikey: MMUCLZZSNHBNFL

Associated Genomic Regions

Region: rs174547

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Clumped rQTL variant

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SNP Summary

Chr:
11
Beta (Ratio):
-0.435
Position:
61570783
SE (Ratio):
0.021
Effect Allele:
C
Z-score (Ratio):
-20.855
Reference Allele:
T
-log10(P):
-220.725
MAF:
0.339
Beta (Num):
-0.165
Novel Locus:
No
SE (Num):
0.016
Beta (Den):
0.270
SE (Den):
0.016
No CNV overlap
rQTL cluster:
62
Reaction Distance:
NA
Closest Genes:
FADS2 FADS1 FEN1 TMEM258 MYRF

Region: rs1260326

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Clumped rQTL variant

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SNP Summary

Chr:
2
Beta (Ratio):
-0.181
Position:
27730940
SE (Ratio):
0.020
Effect Allele:
T
Z-score (Ratio):
-8.872
Reference Allele:
C
-log10(P):
-41.781
MAF:
0.412
Beta (Num):
-0.088
Novel Locus:
Yes ✔️
SE (Num):
0.016
Beta (Den):
0.093
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:

Plasmalogen biosynthesis.3[1]

Denominator Metabolite Explanation:

Phosphatidylcholine biosynthesis, Fatty acid desaturation.4[1], 5[2]

Ratio Explanation:

This ratio compares a plasmalogen with saturated fatty acids to a phosphatidylcholine with unsaturated fatty acids, likely reflecting FADS desaturase activity.

Ratio Evidence:

metabolites not in a pathway but enzyme catalyzes one metabolite

Gene Ratio Phenotype Relationship:

FADS1/FADS2 gene variants alter enzyme activity, impacting the balance of fatty acids in complex lipids.2[1] This dysregulation is linked to altered lipid profiles and inflammation, contributing to phenotypes like Type 2 diabetes, cholelithiasis, and gout.6[2], 7[3], 8[4]

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