GSEA using the 61 genes upregulated in thymic bona fide GZL compared with cHL and PMBCL
| Gene set name . | No. of genes in gene set (K) . | Description . | Genes in overlap (k) . | k/K . | P . | FDR q value . |
|---|---|---|---|---|---|---|
| REACTOME_METALLOTHIONEINS_BIND_METALS | 11 | Metallothioneins bind metals | MT2A, MT1F, MT1G, MTIH, MT1M | 0.4545 | 4.1E-12 | 9.23E-9 |
| REACTOME_RESPONSE_TO_METAL_IONS | 14 | Response to metal ions | MT2A, MT1F, MT1G, MTIH, MT1M | 0.3571 | 1.77E-11 | 1.99E-8 |
| HALLMARK_TNFA_SIGNALING_VIA_NFKB | 200 | Genes regulated by NF-κB in response to TNF | IL1B, LIF, PTGS2, CXCL3, FOS, DUSP1, NR4A1, FOSB, NR4A2 | 0.0450 | 3.5E-11 | 2.62E-8 |
| REACTOME_INTERLEUKIN_10_SIGNALING | 46 | IL-10 signaling | IL1B, LIF, PTGS2, CXCL8, IL1RN | 0.1087 | 1.17E-8 | 6.56E-6 |
| NABA_MATRISOME | 1026 | Ensemble of genes encoding extracellular matrix and extracellular matrix-associated proteins | IL1B, LIF, CXCL3, CXCL8, IL1RN, THPO, HPX, MMP13, ADAMTS18, HYAL4, ASPN, EYS12 | 0.0117 | 7.15E-8 | 3.22E-5 |
| PID_AP1_PATHWAY | 70 | AP-1 transcription factor network | FOS, FOSB, MT2A, DUSP1, CXCL8 | 0.0714 | 1,00E-07 | 3.75E-5 |
| NABA_MATRISOME_ASSOCIATED | 751 | Ensemble of genes encoding ECM-associated proteins including ECM-affiliated proteins, ECM regulators and secreted factors | IL1B, LIF, CXCL3, CXCL8, IL1RN, THPO, HPX, MMP13, ADAMTS18, HYAL4 | 0.0133 | 3.07E-7 | 9.87E-5 |
| HALLMARK_INFLAMMATORY_RESPONSE | 200 | Genes defining inflammatory response | IL1B, LIF, CXCL8, MET, KCNJ2, FFAR2 | 0.0300 | 8.53E-7 | 2.4E-4 |
| REACTOME_INTERLEUKIN_4_AND_INTERLEUKIN_13_SIGNALING | 111 | IL-4 and IL-13 signaling | IL1B, LIF, PTGS2, FOS, CXCL8 | 0.0450 | 1.01E-6 | 2.52E-4 |
| REACTOME_CELLULAR_RESPONSES_TO_EXTERNAL_STIMULI | 535 | Cellular responses to external stimuli | MT2A, MT1F, MT1G, MTIH, MT1M, FOS, CXCL8, HSPA6 | 0.0150 | 2.22E-6 | 4.99E-4 |
| Gene set name . | No. of genes in gene set (K) . | Description . | Genes in overlap (k) . | k/K . | P . | FDR q value . |
|---|---|---|---|---|---|---|
| REACTOME_METALLOTHIONEINS_BIND_METALS | 11 | Metallothioneins bind metals | MT2A, MT1F, MT1G, MTIH, MT1M | 0.4545 | 4.1E-12 | 9.23E-9 |
| REACTOME_RESPONSE_TO_METAL_IONS | 14 | Response to metal ions | MT2A, MT1F, MT1G, MTIH, MT1M | 0.3571 | 1.77E-11 | 1.99E-8 |
| HALLMARK_TNFA_SIGNALING_VIA_NFKB | 200 | Genes regulated by NF-κB in response to TNF | IL1B, LIF, PTGS2, CXCL3, FOS, DUSP1, NR4A1, FOSB, NR4A2 | 0.0450 | 3.5E-11 | 2.62E-8 |
| REACTOME_INTERLEUKIN_10_SIGNALING | 46 | IL-10 signaling | IL1B, LIF, PTGS2, CXCL8, IL1RN | 0.1087 | 1.17E-8 | 6.56E-6 |
| NABA_MATRISOME | 1026 | Ensemble of genes encoding extracellular matrix and extracellular matrix-associated proteins | IL1B, LIF, CXCL3, CXCL8, IL1RN, THPO, HPX, MMP13, ADAMTS18, HYAL4, ASPN, EYS12 | 0.0117 | 7.15E-8 | 3.22E-5 |
| PID_AP1_PATHWAY | 70 | AP-1 transcription factor network | FOS, FOSB, MT2A, DUSP1, CXCL8 | 0.0714 | 1,00E-07 | 3.75E-5 |
| NABA_MATRISOME_ASSOCIATED | 751 | Ensemble of genes encoding ECM-associated proteins including ECM-affiliated proteins, ECM regulators and secreted factors | IL1B, LIF, CXCL3, CXCL8, IL1RN, THPO, HPX, MMP13, ADAMTS18, HYAL4 | 0.0133 | 3.07E-7 | 9.87E-5 |
| HALLMARK_INFLAMMATORY_RESPONSE | 200 | Genes defining inflammatory response | IL1B, LIF, CXCL8, MET, KCNJ2, FFAR2 | 0.0300 | 8.53E-7 | 2.4E-4 |
| REACTOME_INTERLEUKIN_4_AND_INTERLEUKIN_13_SIGNALING | 111 | IL-4 and IL-13 signaling | IL1B, LIF, PTGS2, FOS, CXCL8 | 0.0450 | 1.01E-6 | 2.52E-4 |
| REACTOME_CELLULAR_RESPONSES_TO_EXTERNAL_STIMULI | 535 | Cellular responses to external stimuli | MT2A, MT1F, MT1G, MTIH, MT1M, FOS, CXCL8, HSPA6 | 0.0150 | 2.22E-6 | 4.99E-4 |
GSEA was performed by using the Hallmark and C2 canonical pathway databases. FDR, false discovery rate.