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Table 1 Top ranked immunological transitions of melanoma progression

From: Immunological network signatures of cancer progression and survival

Gene comparison conditions Highest graded immune genes Significance to Melanoma progression
Upregulated (> 2fc) in both primary and metastatic melanoma compared to normal melanocyte (Immunological relevance score for each gene (KL) > 11 bits). CD4, IL10, CD8A, CD40, IL15, IL7, IL18, TNFSF13B, PTPRC, IL13RA2, IL1A, PECAM1, C5AR1, CD86, ISG20, IL18R1, CD14, ITGB2, ADORA3, FCGR3A, CCL2, IL8, CCR5, FCGR3B Signatures of T-cell infiltration, T-cell activation and the inflammatory response. Inclusive of the Th1 inhibiting cytokines
Downregulated (> 2fc) in both primary and metastatic melanoma compared to normal melanocyte (Immunological relevance score for each gene (KL) > 0.5 bits). MME, IL24, DPP4, CYGB, MSC, SLC7A8 Regulation of extracellular matrix (ECM) remodeling, through proteolytic enzymes, and amino acid transporters
Upregulated (> 2fc) in primary melanoma compared to normal melanocyte. Not subject to >2fc in metastasis (Immunological relevance score for each gene (KL) > 2 bits). IL5, TNF, IL1RN, DARC, HLA-DRB4, CFP, PTPN6, CD1B, ELA2, IL17B, ATP8A2, SLPI, CD27, STAT4, CDA, IL26, DEFB4, NFKBIA, HRH1, XCL1, DEFB1, PDPN, CTSG, SDC1, GATA3, MSMB, CD24, POU1F1, PRDM1, EBF1 Cytokine activity that is pro-survival and towards ECM remodeling. Increased transcriptional activity related to T-cell activation in the primary tumor. Increased presence of MHC class II markers.
Downregulated (> 2fc) in primary melanoma compared to normal melanocyte. Not subject to >2fc in metastasis (Immunological relevance score for each gene (KL) > 1 bit). BAX, TNFRSF10B, SV2A Down-regulation is indicative of p53 dysfunction and transduction of apoptosis signals. Overall leading to pro-survival in the primary tumor compared to normal cells
Upregulated (> 2fc) in metastatic melanoma compared to normal melanocyte. Not subject to >2fc in primary. (Immunological relevance score for each gene (KL) > 1 bit). CCRL2, HLA-DRB1, MDK, C4A, CD55, CD80, FCGR1A, KLRC4, ICAM1, SPI1, HCST, PPBP, FCGR2C, GPR160, CXCL16, FOS, SERPINA1 Mediators of inflammation, angiogenesis, cell growth, and cell migration. Also present are signals of humoral immunity in the form of T-cell activation and B-cell development genes
Downregulated (> 2fc) in metastatic melanoma compared to normal melanocyte. Not subject to >2fc in primary. (Immunological relevance score for each gene (KL) > 1 bit). KIT, IRF4, MLANA, MMP1 Down regulation of cell adhesion, differentiation factors and regulators of the innate and adaptive immune systems. Possibly promoting the metastatic phenotype
Upregulated (> 2fc) in metastatic melanoma compared to primary (Immunological relevance score for each gene (KL) < 1 bit). MAGEA3, CSAG2, MAGEA2, GAGE1, MAGEA12, GAGE3, FKBP10 Eliciting immune T cell activation in metastatic tumors, as a consequence of being expressed particularly in the metastatic stages, while having very restricted expression in normal cells
Downregulated (> 2fc) in metastatic melanoma compared to primary (Immunological relevance score for each gene (KL) > 1 bit). S100A9, S100A8, SLPI, DEFB4, DEFB1, MSMB, CD24, DEFB103A, COL17A1 Altered matrix remodeling and migratory behavior. Dynamic changes in the (ECM) in the metastatic tumors. Inclusive in this is the down regulation of important chemoattractants of innate immune cells
  1. Comparison of progressive melanoma states and their highest weighted immunological relevant genes