2-palmitoleoyl-gpc (16:1)* to stearate (18:0)

Numerator Metabolite

Structure of 2-palmitoleoyl-gpc (16:1)*
Metabolite Accession: GCST90199790
Name: 2-palmitoleoyl-gpc (16:1)*
Hmdb Id: HMDB10383
Super Pathway: NA
Sub Pathway: NA
Inchikey: GKXPPJQBVCKAGD

Denominator Metabolite

Structure of stearate (18:0)
Metabolite Accession: GCST90200390
Name: stearate (18:0)
Hmdb Id: HMDB0000827
Super Pathway: NA
Sub Pathway: NA
Inchikey: QIQXTHQIDYTFRH

Associated Genomic Regions

Region: rs603424

Click a 'Plot' button in the tables to the right to view a locus plot here.

Clumped rQTL variant

Loading Ratio Plot...

Loading Numerator Plot...

Loading Denominator Plot...

SNP Summary

Chr:
10
Beta (Ratio):
-0.243
Position:
102075479
SE (Ratio):
0.027
Effect Allele:
A
Z-score (Ratio):
-8.900
Reference Allele:
G
-log10(P):
-42.025
MAF:
0.172
Beta (Num):
-0.146
Novel Locus:
Yes ✔️
SE (Num):
0.022
Beta (Den):
0.097
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:

Glycerophospholipid metabolism, Plasmalogen synthesis3[1], 4[2], 5[3]

Denominator Metabolite Explanation:

Fatty acid biosynthesis6[1], 7[2]

Ratio Explanation:

The ratio reflects the desaturation of stearate (18:0) into an oleate precursor, which is then incorporated into 2-palmitoleoyl-GPC (16:1), catalyzed by SCD.

Ratio Evidence:

canonical reaction catalyzed by the enzyme

Gene Ratio Phenotype Relationship:

Altered SCD activity, influenced by genetic factors, affects the ratio of saturated to monounsaturated fatty acids.1[1] This imbalance is linked to an increased risk of myocardial infarction, cholelithiasis, and other metabolic disorders through its impact on lipid metabolism and cellular function.8[2], 9[3], 10[4]

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