choline to glycocholenate sulfate*

Numerator Metabolite

Structure of choline
Metabolite Accession: GCST90200327
Name: choline
Hmdb Id: HMDB0000097
Super Pathway: NA
Sub Pathway: NA
Inchikey: CRBHXDCYXIISFC

Denominator Metabolite

Structure of glycocholenate sulfate*
Metabolite Accession: GCST90199841
Name: glycocholenate sulfate*
Hmdb Id: HMDB0242178
Super Pathway: NA
Sub Pathway: NA
Inchikey: OTUHTIDAACSDJD

Associated Genomic Regions

Region: rs1047891

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:
2
Beta (Ratio):
-0.183
Position:
211540507
SE (Ratio):
0.023
Effect Allele:
A
Z-score (Ratio):
-8.001
Reference Allele:
C
-log10(P):
-34.332
MAF:
0.310
Beta (Num):
-0.090
Novel Locus:
Yes ✔️
SE (Num):
0.016
Beta (Den):
0.092
SE (Den):
0.017
No CNV overlap
rQTL cluster:
140
Reaction Distance:
NA
Closest Genes:
CPS1 LANCL1 MYL1 ACADL KANSL1L

LLM Analysis

Numerator Metabolite Explanation:

Phospholipid synthesis, one-carbon metabolism, acetylcholine synthesis.3[1], 4[2]

Denominator Metabolite Explanation:

Bile acid biosynthesis and conjugation.5[1], 6[2]

Ratio Explanation:

none

Ratio Evidence:

metabolites related through biology

Gene Ratio Phenotype Relationship:

A CPS1 variant may impair the urea cycle, impacting nitrogen metabolism and kidney function, while also influencing liver health, which can alter bile acid metabolism and increase cholelithiasis risk.1[1], 7[2], 8[3]

Phenotype Driver:

Gene-centric:CPS1

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