1-palmitoyl-2-linoleoyl-gpc (16:0/18:2) to 1-palmitoyl-gpc (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-palmitoyl-gpc (16:0)
Metabolite Accession: GCST90199733
Name: 1-palmitoyl-gpc (16:0)
Hmdb Id: HMDB0010382
Super Pathway: NA
Sub Pathway: NA
Inchikey: ASWBNKHCZGQVJV

Associated Genomic Regions

Region: rs174564

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Clumped rQTL variant

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SNP Summary

Chr:
11
Beta (Ratio):
0.338
Position:
61588305
SE (Ratio):
0.018
Effect Allele:
G
Z-score (Ratio):
19.128
Reference Allele:
A
-log10(P):
-186.113
MAF:
0.345
Beta (Num):
0.276
Novel Locus:
No
SE (Num):
0.016
Beta (Den):
-0.063
SE (Den):
0.016
No CNV overlap
rQTL cluster:
62
Reaction Distance:
NA
Closest Genes:
FADS1 FADS2 FEN1 TMEM258 MYRF

Region: rs173539

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:
16
Beta (Ratio):
0.142
Position:
56988044
SE (Ratio):
0.018
Effect Allele:
T
Z-score (Ratio):
7.971
Reference Allele:
C
-log10(P):
-34.086
MAF:
0.334
Beta (Num):
0.090
Novel Locus:
Yes ✔️
SE (Num):
0.016
Beta (Den):
-0.052
SE (Den):
0.016
No CNV overlap
rQTL cluster:
26
Reaction Distance:
NA
Closest Genes:
CETP HERPUD1 NLRC5 SLC12A3 NUP93

LLM Analysis

Numerator Metabolite Explanation:

Glycerophospholipid metabolism, Phospholipid biosynthesis.4[1], 5[2]

Denominator Metabolite Explanation:

Glycerophospholipid metabolism, Phospholipid degradation.4[1], 6[2], 7[3]

Ratio Explanation:

The ratio reflects the activity of Lysophosphatidylcholine Acyltransferase (LPCAT) enzymes, which acylate lysophosphatidylcholines, with potential indirect influence from FADS enzymes on substrate availability.8[1], 9[2]

Ratio Evidence:

reaction where the ratio is shared through a pathway

Gene Ratio Phenotype Relationship:

Variants in FADS1/FADS2 affect the availability of polyunsaturated fatty acids for incorporation into phospholipids, influencing membrane composition and potentially contributing to dyslipidemia and cardiovascular disease risk.10[1], 11[2], 12[3] The CETP gene is also associated and influences HDL cholesterol levels.13[4], 14[5], 15[6], 16[7], 17[8], 18[9], 19[10], 20[11], 21[12], 22[13]

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