From: Large-scale analysis of expression signatures reveals hidden links among diverse cellular processes
ID | #Sets | Cluster Density | Representitive GeneSet | Biological Theme | Most freqently shared genes between gene sets | Most significantly enriched GO Term | P values |
---|---|---|---|---|---|---|---|
1a | 31 | 13.5 | P21_P53_ANY_DN_49 (Sup. Figure 1) | Cell cycle, especially M phase | FOXM1,CCNB1,KIF2C,KIF11,CDC2,CCNB2,UBE2C,CDC20,MKI67,DLG7 | Cell Cycle | 2.80E-45 |
1b | 29 | 12.8 | DER_IFNB_UP_93 (Figure 3) | Immune response/interferon | MX2,MX1,OAS1,STAT1,OAS2,ISG15,IFITM1,IFIT3,IRF7,IFI27Response to virus | Â | 1.30E-19 |
2 | 15 | 3.7 | IL1_CORNEA_UP_63 | Inflammatory response/IL1 | IL1B,CCL4,PLAUR,CXCL2,CCL5,TNFAIP3,CD44,IER3,NFKBIA,PLEK | Immune system process | 1.00E-15 |
3 | 16 | 3.6 | TNFA_NFKB_DEP_UP_18 (Figure 5) | Inflammatory response/TNFa related | GPNMB,CXCL1,SOD2,MMP9,CXCL5,CCL2,CHI3L1,CXCL3,CD9,IL1B | Immune system process | 2.70E-20 |
4 | 14 | 3.1 | GENOTOXINS_ALL_4HRS_REG_27 (Figure 4) | Cell cycle, DNA damage response | CKS2,ECT2,MAD2L1,BUB1,AURKA,CCNB2,CKS1B,PRC1,TRIP13,RRM2 | Cell Cycle | 3.10E-22 |
5 | 20 | 2.1 | HOHENKIRK_MONOCYTE_DEND_DN_122 | Inflammatory response/blood cells | STAT1,RAB2,CXCL3,HSPH1,SFRS3,S100A4,S100A8,TOP2A,ACTR1B,ANXA1 | inflammatory response | 7.40E-04 |
6 | 14 | 2.0 | TGFBETA_ALL_UP_80 | Cell adhesion, differentiation | IGFBP3,COL6A3,THBS2,CSPG2,SERPINE1,COL1A2,COL3A1,COL6A1,LOX,TIMP1 | Cell adhesion | 9.60E-07 |
7 | 6 | 2.0 | ESR_FIBROBLAST_DN_18 | cell differentiation | GNPNAT1,LCK,NDRG1,SOX7,TAF1C,TP53I11,ZNF507,CEPT1,GABBR1,HGF | -- | Â |
8 | 35 | 2.0 | HYPOXIA_REG_UP_38 (Figure 6) | Cell cycle arrest | POSTN,MTHFD1,MYC,TFRC,COL6A3,CSPG2,CTPS,SNRPA1,WEE1,ADORA2B | cell cycle arrest | 8.30E-02 |
9 | 18 | 1.7 | UVC_XPCS_4HR_DN_242 | Down-regulated by UV, TNFa | ITGB5,AXL,ARL4C,RGS4,ACTA2,ARHGAP1,ARL6IP5,CAP2,COL1A2,CYFIP2 | Signal Transduction | 7.50E-04 |
10 | 7 | 1.7 | SCHUMACHER_MYC_UP_54 ( Figure 2) | MYC target genes | NME1,HSPE1,HSPD1,LDHA,TFRC,APEX1,CDK4,EBNA1BP2,ENO1,FKBP4 | Intracellular organelle lumen | 1.80E-02 |
11 | 5 | 1.6 | GNATENKO_PLATELET_UP_47 | Platelet genes | PF4,PPBP,TMSB4X,GPX1,HIST2H2AA4,ACTB,B2M,CCL5,CD99,CFL1 | * | Â |
12 | 7 | 1.6 | ADIPOCYTE_PPARG_UP_16 | Lipid metabolic process | ADIPOQ,AQP7,DGAT1,FASN,RETN,CIDEC,COX7B,NDUFS1,NR1H3,SCARB1 | Lipid metabolic process | 7.10E-04 |
13 | 27 | 1.6 | CHANG_SERUM_RESPONSE_DN_194 | Â | SC4MOL,ACTB,HMGCS1,BAK1,ZYX,SCD,BAD,CTNNA1,FDPS,ITGB4 | hemopoiesis | 3.60E-03 |
14 | 4 | 1.5 | CISPLATIN_PROBCELL_UP_17 | Â | ABI1,CDKN1A,EI24,LPIN1,TOB1,TP53INP1,TXNIP,ABLIM1,CARHSP1,H2AFJ | * | Â |
15 | 6 | 1.3 | UVC_LOW_ALL_UP_19 | Response to DNA damage, UV | BTG2,CDKN1A,GDF15,BTG1,DDB2,PLXNB2,FDXR,GPRC5A | * | Â |
16 | 7 | 1.3 | FLECHNER_KIDNEY_TRANSPLANT_WELL_UP_565 | Â | RAB1A,ATP2A2,COL1A2,PGK1,RAB2,SPARC,WEE1,AGL,CFLAR,DNAJA1 | * | Â |
17 | 5 | 1.2 | CMV_HCMV_TIMECOURSE_ALL_UP_470 | IL6 induced | MX1,IRF4,TNFSF10,CCNC,DNAJB9,GATM,GNA13,HBEGF,ICAM1,JUNB | Response to stimulus | 4.80E-02 |
18 | 5 | 1.2 | REN_E2F1_TARGETS_50 | E2F1 target genes | PCNA,TOP2A,KIAA0101,POLA2,RFC4 | * | Â |
19 | 6 | 1.2 | STEMCELL_HEMATOPOIETIC_UP_1452 | Stem cell enriched | ATP5D,BTBD14A,EEF1A1,GLUL,NTAN1,NUDCD2,PCGF2,ATP1A1,CD151,DYNC1H | * | Â |
20 | 4 | 1.0 | ZHAN_MULTIPLE_MYELOMA_VS_NORMAL_DN_4 | Leukemia related | ELA2,BLNK,BZRAP1,CD24,CD7,CEBPD,CST7,DNTT,HGF,KCNE1L | * | Â |
21 | 4 | 1.0 | NADLER_OBESITY_DN_38 | Obesity down, adipocyte up | PPA1,ACSL1,AGT,ALDH2,CFD,CRAT,FABP4,LDHB,PC,PPARG | * | Â |