Programmed death 1, ligand 1 and 2 correlated genes and their association with mutation, immune infiltration and clinical outcomes of hepatocellular carcinoma

Table 2 GO analysis for programmed death 1/programmed death ligand 1/programmed death ligand 2 co-expression gene

ID	Description	Gene ratio	P value	P adjust	Gene ID	Count
GO: 0042110	T cell activation	16/27	1.23 × 10-19	1.10 × 10-16	PTPN6/CD3E/LCK/PDCD1/CD3G/IDO1/TNFRSF4/TIGIT/PTPRC/CD40LG/PRDM1/EOMES/CD2/CD5/CD8A/IRF4	16
GO: 0050863	Regulation of T cell activation	12/27	4.55 × 10-15	2.05 × 10-12	PTPN6/CD3E/LCK/PDCD1/IDO1/TIGIT/PTPRC/CD40LG/PRDM1/CD2/CD5/IRF4	12
GO: 0051249	Regulation of lymphocyte activation	13/27	2.40 × 10-14	5.40 × 10-12	PTPN6/CD3E/LCK/PDCD1/IDO1/TNFRSF4/TIGIT/PTPRC/CD40LG/PRDM1/CD2/CD5/IRF4	13
GO: 1903037	Regulation of leukocyte cell-cell adhesion	10/27	5.69 × 10-12	1.02 × 10-9	PTPN6/CD3E/LCK/PDCD1/IDO1/TIGIT/PTPRC/CD40LG/CD5/ITGA4	10
GO: 0007159	Leukocyte cell-cell adhesion	10/27	1.68 × 10-11	2.53 × 10-9	PTPN6/CD3E/LCK/PDCD1/IDO1/TIGIT/PTPRC/CD40LG/CD5/ITGA4	10
GO: 0007204	Positive regulation of cytosolic calcium ion concentration	9/27	3.25 × 10-10	2.66 × 10-8	PTPN6/LCK/CD19/PTPRC/CXCR3/FASLG/CXCR4/CD52/CXCL9	9
GO: 0050852	T cell receptor signaling pathway	9/27	1.56 × 10-9	1.00 × 10-7	PTPN6/CD3E/LCK/HLA-DQB1/CD3G/PTPRC/CD247	7
GO: 0055074	Calcium ion homeostasis	9/27	1.08 × 10-8	4.87 × 10-7	PTPN6/LCK/CD19/PTPRC/CXCR3/FASLG/CXCR4/CD52/CXCL9	9
GO: 0051209	Release of sequestered calcium ion into cytosol	6/27	1.42 × 10-8	5.81 × 10-7	PTPN6/LCK/CD19/PTPRC/FASLG/CXCL9	6
GO: 0006968	Cellular defense response	5/27	2.52 × 10-8	8.11 × 10-7	TNFRSF4/CD19/PRF1/CXCL9/SH2D1A	5
GO: 0050867	Positive regulation of cell activation	5/8	2.00 × 10-7	5.23 × 10-5	PDCD1LG2/JAK2/CD274/ITPKB/PDGFRB	5
GO: 0022407	Regulation of cell-cell adhesion	5/8	2.11 × 10-7	5.23 × 10-5	PDCD1LG2/JAK2/CD44/CD274/ITPKB	5
GO: 0045785	Positive regulation of cell adhesion	5/8	2.36 × 10-7	5.23 × 10-5	PDCD1LG2/JAK2/CD44/CD274/ITPKB	5
GO: 0060333	Interferon-gamma-mediated signaling pathway	3/8	6.13 × 10-6	0.000528087	JAK2/CD44/NCAM1	3
GO: 0007159	Leukocyte cell-cell adhesion	4/8	6.35 × 10-6	0.000528087	PDCD1LG2/CD44/CD274/ITPKB	4
GO: 2001269	Positive regulation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway	2/8	7.36 × 10-6	0.000543547	JAK2/FAS	2
GO: 0046007	Negative regulation of activated T cell proliferation	2/8	8.99 × 10-6	0.000597772	PDCD1LG2/CD274	2
GO: 0032693	Negative regulation of interleukin-10 production	2/8	2.22 × 10-5	0.001230174	PDCD1LG2/CD274	2
GO: 0032516	Positive regulation of phosphoprotein phosphatase activity	2/8	3.42 × 10-5	0.001626763	JAK2/PDGFRB	2
GO: 0055093	Response to hyperoxia	2/8	3.42 × 10-5	0.001626763	FAS/PDGFRB	2

P < 0.05 was considered significant.