Table 4 Pathway Enrichment Analysis results for the GWAS of the extreme pain classes. The pathway enrichment analysis was performed in Enrichr leveraging the union of two gene sets originating from the extreme GWAS: (1) the unique genes in which genic SNPs had an association p-value < 0.0001 (supplementary Table S12), and (2) unique genes with p-value < 0.01 in the gene-based association tests (supplementary Table S12). The table summarizes the results utilizing the KEGG database and the REACTOME database, showing the term (the enriched biological pathway), gene (list of genes overlapping with the enriched pathway), odds ratio, combined score (natural logarithm of the Fisher exact test p-value multiplied by the corresponding z-score), and the p-value. Abbreviations: OR: odds ratio.
From: Exploring the early drivers of pain in Parkinson’s disease
Database | Term | Genes | OR | Combined Score | p-value |
|---|---|---|---|---|---|
KEGG | Serotonergic synapse | PRKCG, GABRB3, GNG2, PLA2G4D, HTR1F, TRPC1, ITPR1, SLC18A1, RAPGEF3, GNAI1 | 6.3 | 71.0 | \(1.17\times{10}^{-5}\) |
Dopaminergic synapse | PRKCG, GRIA1, MAPK, GNG2, PPP2R5E, ITPR1, GRIN2B, SLC18A1, GNAI1, PPP1CA | 5.3 | 52.7 | \(4.54\times{10}^{-5}\) | |
Glutamatergic synapse | PRKCG, GRIA1, GRK2, GNG2, PLA2G4D, TRPC1, ITPR1, GRIN2B, GNAI1 | 5.5 | 52.0 | \(7.91\times{10}^{-5}\) | |
Long-term potentiation | PRKCG, GRIA1, ITPR1, EP300, GRIN2B, RAPGEF3, PPP1CA | 4.5 | 69.9 | \(8.54\times{10}^{-5}\) | |
Long-term depression | PRKCG, GRIA1, PLA2G4D, ITPR1, PRKG2, GNAI1 | 7.1 | 56.3 | \(3.51\times{10}^{-4}\) | |
Platelet activation | MYLK2, PLA2G4D, PIK3CA, ITPR1, PRKG2, RASGRP2, GNAI1, PPP1CA | 4.4 | 31.6 | \(7.69\times{10}^{-4}\) | |
Circadian entrainment | PRKCG, GRIA1, GNG2, ITPR1, PRKG2, GRIN2B, GNAI1 | 5.0 | 35.1 | \(8.45\times{10}^{-4}\) | |
Inflammatory mediator regulation of TRP channels | PRKCG, MAPK8, PLA2G4D, PIK3CA, PRKCE, ITPR1, PPP1CA | 4.9 | 34.4 | \(8.98\times{10}^{-4}\) | |
REACTOME | DAG And IP3 Signaling R-HSA-1,489,509 | PRKCG, GRK2, PRKCE, ITPR1, CAMKK1 | 9.4 | 74.6 | \(3.43\times{10}^{-4}\) |
Opioid Signaling R-HSA-111,885 | PRKCG, GNG2, GRK2, ITPR1, CAMKK1, GNAI1, PPP1CA | 5.5 | 42.3 | \(4.71\times{10}^{-4}\) | |
Role Of Phospholipids In Phagocytosis R-HSA-2,029,485 | IGLL5, PIK3CA, PRKCE, ITPR1 | 11.5 | 84.1 | \(6.78\times{10}^{-4}\) |
