1-palmitoleoyl-gpc (16:1)* to 1-myristoyl-2-palmitoyl-gpc (14:0/16:0)

Numerator Metabolite

Structure of 1-palmitoleoyl-gpc (16:1)*
Metabolite Accession: GCST90199777
Name: 1-palmitoleoyl-gpc (16:1)*
Hmdb Id: HMDB0010383
Super Pathway: NA
Sub Pathway: NA
Inchikey: LFUDDCMNKWEORN

Denominator Metabolite

Structure of 1-myristoyl-2-palmitoyl-gpc (14:0/16:0)
Metabolite Accession: GCST90199653
Name: 1-myristoyl-2-palmitoyl-gpc (14:0/16:0)
Hmdb Id: HMDB0007869
Super Pathway: NA
Sub Pathway: NA
Inchikey: RFVFQQWKPSOBED

Associated Genomic Regions

Region: rs603424

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:
10
Beta (Ratio):
-0.224
Position:
102075479
SE (Ratio):
0.020
Effect Allele:
A
Z-score (Ratio):
-11.149
Reference Allele:
G
-log10(P):
-64.793
MAF:
0.176
Beta (Num):
-0.179
Novel Locus:
No
SE (Num):
0.020
Beta (Den):
0.046
SE (Den):
0.020
No CNV overlap
rQTL cluster:
67
Reaction Distance:
NA
Closest Genes:
PKD2L1 BLOC1S2 SCD CWF19L1 CHUK

LLM Analysis

Numerator Metabolite Explanation:

Fatty acid desaturation, Phospholipid metabolism.1[1], 4[2]

Denominator Metabolite Explanation:

Phospholipid metabolism, Saturated fatty acid synthesis.1[1], 5[2], 6[3]

Ratio Explanation:

This ratio reflects SCD enzyme activity by comparing a monounsaturated lysophosphatidylcholine (product-associated) to a saturated phosphatidylcholine (substrate-associated), indicating the rate of fatty acid desaturation.1[1], 7[2]

Ratio Evidence:

reaction where the ratio is shared through a pathway

Gene Ratio Phenotype Relationship:

Genetic variants in SCD likely alter its desaturase activity, modifying the ratio of monounsaturated to saturated phospholipids.7[1], 2[2] This lipid profile alteration is a known contributor to dyslipidemia, atherosclerosis, and the associated increased risk of ischemic heart disease and myocardial infarction.8[3], 3[4], 9[5]

Phenotype Driver:

Gene-centric:SCD

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