delta-cehc to gamma-tocopherol/beta-tocopherol

Numerator Metabolite

Structure of delta-cehc
Metabolite Accession: GCST90200202
Name: delta-cehc
Hmdb Id: HMDB0242106
Super Pathway: NA
Sub Pathway: NA
Inchikey: BNVXCCQXUZCRSR

Denominator Metabolite

Structure of gamma-tocopherol/beta-tocopherol
Metabolite Accession: GCST90200066
Name: gamma-tocopherol/beta-tocopherol
Hmdb Id: HMDB0006335,HMDB0001492
Super Pathway: NA
Sub Pathway: NA
Inchikey: WGVKWNUPNGFDFJ

Associated Genomic Regions

Region: rs2108622

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:
19
Beta (Ratio):
-0.207
Position:
15990431
SE (Ratio):
0.023
Effect Allele:
T
Z-score (Ratio):
-9.022
Reference Allele:
C
-log10(P):
-43.137
MAF:
0.288
Beta (Num):
-0.121
Novel Locus:
Yes ✔️
SE (Num):
0.019
Beta (Den):
0.086
SE (Den):
0.016
No CNV overlap
rQTL cluster:
10
Reaction Distance:
NA
Closest Genes:
CYP4F2 CYP4F11 OR10H4 OR10H1 OR10H5

LLM Analysis

Numerator Metabolite Explanation:

Vitamin E metabolism. 3[1], 4[2]

Denominator Metabolite Explanation:

Vitamin E metabolism. 3[1], 4[2], 5[3]

Ratio Explanation:

This ratio reflects CYP4F2-mediated vitamin E degradation, where higher values suggest increased breakdown of gamma- and beta-tocopherol into CEHC.

Ratio Evidence:

metabolites not in a pathway but enzyme catalyzes one metabolite

Gene Ratio Phenotype Relationship:

Reduced CYP4F2 activity, indicated by a lower ratio, is associated with an increased risk of coronary atherosclerosis and ischemic heart disease. 6[1], 7[2], 8[3], 9[4], 10[5]This may be due to altered levels of vitamin K and pro-inflammatory eicosanoids, also metabolized by CYP4F2. 1[6], 2[7]

Phenotype Driver:

Gene-centric:CYP4F2

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