1-(1-enyl-palmitoyl)-2-palmitoyl-gpc (p-16:0/16:0)* to 1-palmitoyl-gpe (16:0)

Numerator Metabolite

Structure of 1-(1-enyl-palmitoyl)-2-palmitoyl-gpc (p-16:0/16:0)*
Metabolite Accession: GCST90200083
Name: 1-(1-enyl-palmitoyl)-2-palmitoyl-gpc (p-16:0/16:0)*
Hmdb Id: HMDB0011206
Super Pathway: NA
Sub Pathway: NA
Inchikey: PEWXKAOBUSBJLD

Denominator Metabolite

Structure of 1-palmitoyl-gpe (16:0)
Metabolite Accession: GCST90199792
Name: 1-palmitoyl-gpe (16:0)
Hmdb Id: HMDB0011503
Super Pathway: NA
Sub Pathway: NA
Inchikey: YVYMBNSKXOXSKW

Associated Genomic Regions

Region: rs1260326

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):
-0.175
Position:
27730940
SE (Ratio):
0.020
Effect Allele:
T
Z-score (Ratio):
-8.856
Reference Allele:
C
-log10(P):
-41.637
MAF:
0.412
Beta (Num):
-0.088
Novel Locus:
Yes ✔️
SE (Num):
0.016
Beta (Den):
0.087
SE (Den):
0.016
No CNV overlap
rQTL cluster:
152
Reaction Distance:
NA
Closest Genes:
GCKR FNDC4 IFT172 AC109829.1 KRTCAP3

LLM Analysis

Numerator Metabolite Explanation:

Plasmalogen metabolism3[1], 4[2]

Denominator Metabolite Explanation:

Glycerophospholipid metabolism5[1]

Ratio Explanation:

The ratio of a plasmalogen to a lysophospholipid may reflect PLB1 activity, which hydrolyzes phospholipids like the numerator to products including lysophospholipids.

Ratio Evidence:

metabolites not in a pathway but enzyme catalyzes one metabolite

Gene Ratio Phenotype Relationship:

PLB1 gene variants are associated with altered lipid metabolism, and changes in plasmalogen levels are linked to cirrhosis and heart disease.1[1], 6[2], 7[3] Reduced plasmalogen levels, potentially due to increased PLB1 activity, could contribute to the pathogenesis of these inflammatory and metabolic conditions.6[4], 7[5]

Phenotype Driver:

Gene-centric:PLB1

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