Table 3 Summary of the GSEA-identified gene sets in in vitro activated T cells of psoriasis patients compared to healthy controls
Name | NES | NOM p-val | FDR q-val |
|---|---|---|---|
General processes of immune system | Â | Â | Â |
Reactome cytokine signaling in immune system | 2.498 | 0.000 | 0.0000 |
KEGG cytokine cytokine receptor interaction | 1.980 | 0.000 | 0.0130 |
KEGG hematopoietic cell lineage | 1.917 | 0.000 | 0.0167 |
KEGG cell adhesion molecules cams | 1.903 | 0.000 | 0.0173 |
Infectious and autoimmune diseases | Â | Â | Â |
KEGG autoimmune thyroid disease | 1.996 | 0.002 | 0.0126 |
KEGG allograft rejection | 1.866 | 0.000 | 0.0234 |
KEGG leishmania infection | 1.961 | 0.000 | 0.0121 |
KEGG viral myocarditis | 1.900 | 0.000 | 0.0175 |
T cell activation | Â | Â | Â |
Reactome downstream TCR signaling | 1.869 | 0.000 | 0.0232 |
PID NFAT TF pathway | 1.903 | 0.000 | 0.0179 |
PID AP1 pathway | 1.936 | 0.000 | 0.0148 |
Biocarta CTLA4 pathway | 1.854 | 0.000 | 0.0253 |
Innate immune system activation | Â | Â | Â |
Reactome innate immune system | 2.145 | 0.000 | 0.0014 |
Reactome inflammasomes | 1.905 | 0.000 | 0.0180 |
Reactome antiviral mechanism by IFN stimulated genes | 1.915 | 0.000 | 0.0160 |
Reactome RIG I MDA5 mediated induction of IFN alpha beta pathways | 2.212 | 0.000 | 0.0005 |
KEGG RIG I like receptor signaling pathway | 2.144 | 0.000 | 0.0012 |
Reactome negative regulators of RIG I MDA5 signaling | 2.123 | 0.000 | 0.0018 |
KEGG NOD like receptor signaling pathway | 1.953 | 0.000 | 0.0128 |
Reactome nucleotide binding domain leucine rich repeat containing receptor NLR signaling pathways | 2.048 | 0.000 | 0.0058 |
KEGG toll like receptor signaling pathway | 1.802 | 0.000 | 0.0398 |
Reactome TRAF6 mediated IRF7 activation | 1.875 | 0.002 | 0.0226 |
KEGG cytosolic DNA sensing pathway | 1.781 | 0.002 | 0.0449 |
Cytokine signaling | Â | Â | Â |
KEGG JAK STAT signaling pathway | 1.977 | 0.000 | 0.0119 |
PID IL12 STAT4 pathway | 1.775 | 0.004 | 0.0454 |
Reactome interferon signaling | 2.701 | 0.000 | 0.0000 |
Reactome interferon alpha beta signaling | 2.760 | 0.000 | 0.0000 |
Reactome interferon gamma signaling | 2.303 | 0.000 | 0.0000 |
PID IFNG pathway | 1.787 | 0.002 | 0.0434 |
PID SMAD2 3 nuclear pathway | 2.094 | 0.000 | 0.0031 |
Reactome transcriptional activity OF SMAD2 SMAD3 SMAD4 heterotrimer | 1.794 | 0.002 | 0.0421 |
Reactome SMAD2 SMAD3 SMAD4 heterotrimer regulates transcription | 1.771 | 0.012 | 0.0451 |
Differentiation, proliferation and apoptosis | Â | Â | Â |
PID notch pathway | 1.916 | 0.000 | 0.0163 |
PID Betacatenin Nuc pathway | 1.844 | 0.002 | 0.0271 |
Biocarta gleevec pathway | 1.862 | 0.000 | 0.0237 |
PID CMYB pathway | 1.842 | 0.000 | 0.0271 |
Reactome YAP1 AND WWTR1 TAZ stimulated gene expression | 1.804 | 0.008 | 0.0400 |
PID P53 downstream pathway | 1.772 | 0.000 | 0.0452 |
Metabolism | Â | Â | Â |
Reactome cholesterol biosynthesis | 2.050 | 0.000 | 0.0063 |
Reactome fatty acid triacylglycerol and ketone body metabolism | 1.961 | 0.000 | 0.0128 |
Reactome metabolism of lipids and lipoproteins | 1.927 | 0.000 | 0.0157 |
KEGG biosynthesis of unsaturated fatty acids | 1.790 | 0.006 | 0.0429 |
KEGG glycine serine and threonine metabolism | 1.877 | 0.000 | 0.0227 |
KEGG metabolism of xenobiotics by cytochrome P450 | 1.924 | 0.002 | 0.0157 |
Reactome PPARA activates gene expression | 2.076 | 0.000 | 0.0043 |
Biocarta PPARA pathway | 1.780 | 0.006 | 0.0444 |
Unfolded protein response | Â | Â | Â |
Reactome unfolded protein response | 1.972 | 0.000 | 0.0120 |
Reactome perk regulated gene expression | 1.872 | 0.000 | 0.0230 |
Reactome activation of genes by ATF4 | 1.896 | 0.000 | 0.0180 |
PID ATF2 pathway | 1.977 | 0.000 | 0.0125 |
Other | Â | Â | Â |
KEGG intestinal immune network for IGA production | 1.996 | 0.000 | 0.0117 |
KEGG lysosome | 1.951 | 0.000 | 0.0127 |
Reactome generic transcription pathway | 1.813 | 0.000 | 0.0372 |
PID HIF1 TFPATHWAY | 1.778 | 0.002 | 0.0444 |
Reactome RORA activates circadian expression | 1.773 | 0.007 | 0.0457 |