lithocholate sulfate (1) to pregnanediol-3-glucuronide

Numerator Metabolite

Metabolite Accession: GCST90200231
Name: lithocholate sulfate (1)
Hmdb Id: NA
Super Pathway: NA
Sub Pathway: NA
Inchikey: NA

Denominator Metabolite

Structure of pregnanediol-3-glucuronide
Metabolite Accession: GCST90199917
Name: pregnanediol-3-glucuronide
Hmdb Id: HMDB0010318
Super Pathway: NA
Sub Pathway: NA
Inchikey: ZFFFJLDTCLJDHL

Associated Genomic Regions

Region: rs296383

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:
19
Beta (Ratio):
-0.337
Position:
48370888
SE (Ratio):
0.028
Effect Allele:
A
Z-score (Ratio):
-12.137
Reference Allele:
G
-log10(P):
-76.383
MAF:
0.160
Beta (Num):
-0.225
Novel Locus:
No
SE (Num):
0.021
Beta (Den):
0.113
SE (Den):
0.021
No CNV overlap
rQTL cluster:
7
Reaction Distance:
NA
Closest Genes:
SULT2A1 TPRX2P CRX TPRX1 SEPW1

LLM Analysis

Numerator Metabolite Explanation:

Bile acid biosynthesis.4[1], 5[2]

Denominator Metabolite Explanation:

Progesterone metabolism.6[1], 7[2]

Ratio Explanation:

A higher ratio may indicate increased SULT2A1 activity, favoring sulfation of lithocholate over the pathways leading to pregnanediol-3-glucuronide, potentially as a protective mechanism.8[1], 9[2]

Ratio Evidence:

metabolites not in a pathway but enzyme catalyzes one metabolite

Gene Ratio Phenotype Relationship:

SULT2A1 sulfates lithocholic acid for excretion, a process linked to cholelithiasis.10[1], 11[2] Higher SULT2A1 activity, reflected by an increased ratio, may be a protective response to cholestasis, a condition that can lead to gallstone formation and elevated alkaline phosphatase.3[3], 8[4], 11[5]

Phenotype Driver:

Gene-centric:SULT2A1

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