2-palmitoleoyl-gpc (16:1)* to stearoylcarnitine (c18)

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 stearoylcarnitine (c18)
Metabolite Accession: GCST90199743
Name: stearoylcarnitine (c18)
Hmdb Id: HMDB0000848
Super Pathway: NA
Sub Pathway: NA
Inchikey: FNPHNLNTJNMAEE

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):
-0.249
Position:
102075479
SE (Ratio):
0.028
Effect Allele:
A
Z-score (Ratio):
-8.778
Reference Allele:
G
-log10(P):
-40.938
MAF:
0.172
Beta (Num):
-0.146
Novel Locus:
Yes ✔️
SE (Num):
0.022
Beta (Den):
0.103
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, fatty acid desaturation.3[1], 4[2]

Denominator Metabolite Explanation:

Fatty acid beta-oxidation, carnitine shuttle.5[1], 6[2], 7[3]

Ratio Explanation:

This ratio reflects Stearoyl-CoA Desaturase (SCD) activity, indexing the conversion of saturated fatty acid precursors (stearoyl) to monounsaturated fatty acid products (palmitoleoyl).1[1], 8[2]

Ratio Evidence:

reaction where the ratio is shared through a pathway

Gene Ratio Phenotype Relationship:

Genetic regulation of SCD alters its activity, modifying the balance of saturated (stearoylcarnitine) and monounsaturated (2-palmitoleoyl-gpc) fatty acids, which is linked to dyslipidemia, atherosclerosis, and increased risk for myocardial infarction and hypertension.9[1], 10[2]

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