palmitoleoylcarnitine (c16:1)* to palmitate (16:0)

Numerator Metabolite

Structure of palmitoleoylcarnitine (c16:1)*
Metabolite Accession: GCST90200110
Name: palmitoleoylcarnitine (c16:1)*
Hmdb Id: HMDB0240782
Super Pathway: NA
Sub Pathway: NA
Inchikey: JFAGPSOZZSTLRF

Denominator Metabolite

Structure of palmitate (16:0)
Metabolite Accession: GCST90200397
Name: palmitate (16:0)
Hmdb Id: HMDB0000220
Super Pathway: NA
Sub Pathway: NA
Inchikey: IPCSVZSSVZVIGE

Associated Genomic Regions

Region: rs603424

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Clumped rQTL variant

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SNP Summary

Chr:
10
Beta (Ratio):
-0.177
Position:
102075479
SE (Ratio):
0.016
Effect Allele:
A
Z-score (Ratio):
-10.704
Reference Allele:
G
-log10(P):
-59.888
MAF:
0.176
Beta (Num):
-0.130
Novel Locus:
No
SE (Num):
0.019
Beta (Den):
0.046
SE (Den):
0.020
No CNV overlap
rQTL cluster:
67
Reaction Distance:
NA
Closest Genes:
PKD2L1 BLOC1S2 SCD CWF19L1 CHUK

Region: rs635619

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Clumped rQTL variant

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SNP Summary

Chr:
5
Beta (Ratio):
0.126
Position:
131720265
SE (Ratio):
0.014
Effect Allele:
A
Z-score (Ratio):
9.131
Reference Allele:
G
-log10(P):
-44.133
MAF:
0.294
Beta (Num):
0.092
Novel Locus:
Yes ✔️
SE (Num):
0.016
Beta (Den):
-0.034
SE (Den):
0.016
No CNV overlap
rQTL cluster:
115
Reaction Distance:
NA
Closest Genes:
SLC22A5 C5orf56 SLC22A4 P4HA2 IRF1

LLM Analysis

Numerator Metabolite Explanation:

Fatty acid desaturation, carnitine shuttle

Denominator Metabolite Explanation:

Fatty acid biosynthesis, lipolysis

Ratio Explanation:

This ratio serves as an index of Stearoyl-CoA desaturase (SCD) activity, reflecting the conversion of palmitate (16:0) to its desaturated product, palmitoleate (16:1).3[1]

Ratio Evidence:

reaction where the ratio is shared through a pathway

Gene Ratio Phenotype Relationship:

Elevated SCD activity, indicated by a higher ratio, is associated with hyperlipidemia and an increased risk for cardiovascular diseases, including coronary atherosclerosis and myocardial infarction, which are observed phenotypes.4[1], 5[2], 6[3]

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