Pathway analysis of commonly expressed genes found in humans and in non-human primates during naïve state of pluripotency. keggid kegg_namesig_pw n_pw n_all n_sig p_hyper q_hyper genes hsa04110 Cell cycle 107 128 5869 2739 2.42E-18 5.55E-16 CDK2,CDK4,CDK6,CDK7,CDKN1A,CDKN1B,STAG1,CDKN2B,ANAPC10,MAD2L2,STAG2,GADD45G,DBF4,YWHAQ,CHEK1,CHEK2,CREBBP,GADD45A,E2F1,E2F2,E2F3,E2F4,E2F5,EP300,ORC3,CDC26,ABL1,ANAPC13,SFN,GSK3B,ANAPC2,ANAPC4,HDAC1,HDAC2,MAD2L1,SMAD2,SMAD3,SMAD4,MCM2,MCM3,MCM4,MCM5,MCM6,MCM7,MDM2,MYC,GADD45B,ATM,ORC1,ORC2,ORC4,ORC5,FZR1,ANAPC7,ANAPC11,PLK1,ATR,PRKDC,RAD21,RB1,RBL1,CCND1,ANAPC1,SKP2,BUB1,BUB1B,TFDP1,TFDP2,TGFB1,TGFB2,TP53,TTK,WEE1,YWHAB,YWHAE,YWHAG,YWHAH,YWHAZ,ZBTB17,SMC1A,CDC7,CDC45,MAD1L1,CDC14A,CDC23,CDC16,CCNA2,CCNB1,CCND2,CCND3,CCNE1,CCNH,PKMYT1,SMC3,CCNB2,CCNE2,BUB3,PTTG1,ESPL1,CDK1,CDC6,CDC20,CDC25A,CDC25B,CDC25C,CDC27,RBX1 hsa03013 RNA transport121 152 5869 2739 3.24E-17 3.71E-15 SNUPN,EIF1,POP7,SRRM1,SAP18,EIF1B,PRMT5,TACC3,NXF1,RPP30,RPP38,PAIP1,POP4,RPP40,RNPS1,POP1,STRAP,DDX20,XPOT,CLNS1A,NUP35,RPP25L,EEF1A1,EEF1A2,EIF2S1,EIF2B1,EIF2S3,EIF4A1,EIF4B,EIF4E,EIF4EBP1,EIF4G1,EIF4G2,EIF5,CASC3,NCBP2,ACIN1,NUP205,NUP210,NUP62,GEMIN5,UPF2,PABPC1,NXT1,NUP43,EIF3E,KPNB1,MAGOH,NCBP1,NUP88,NUP98,PABPC3,GEMIN4,NMD3,POP5,PHAX,NUP54,PNN,RPP25,GEMIN8,MAGOHB,ELAC1,NDC1,NUP133,NXT2,NUP107,THOC2,XPO5,RAN,RANBP2,RANGAP1,SENP2,UPF1,ELAC2,SEC13,UPF3B,SMN1,SUMO3,SUMO2,TPR,SUMO1,XPO1,NUP37,DDX39B,THOC6,GEMIN7,GEMIN6,RPP21,NUP85,THOC7,NUP214,AAAS,SEH1L,WIBG,THOC3,RAE1,THOC5,EIF3A,EIF3B,EIF3C,EIF3D,EIF3F,EIF3G,EIF3H,EIF3I,EIF3J,EIF4G3,PABPC4,EIF2B4,EIF2B2,EIF2B5,EIF2S2,EIF1AY,EIF4E2,NUP155,EIF5B,TGS1,NUP93,EIF4A3,NUP153,THOC1 hsa04141 Protein processing125 in endoplasmic168 5869reticulum 2739 1.14E-13 8.67E-12 PREB,PDIA6,BCAP31,STUB1,UBE4B,DNAJA2,MARCH6,SEC24B,UBE2E3,SEC23B,SEC23A,HYOU1,SEC24A,HSPH1,MAN1A2,SEC61B,OS9,LMAN2,ERP29,CKAP4,SEC63,MAN1B1,ATF6B,DAD1,DDIT3,DDOST,EIF2S1,STT3B,HSPA4L,ATF6,GANAB,TRAM1,SEC61G,HSPBP1,PPP1R15A,SVIP,AMFR,EIF2AK1,ERLEC1,PDIA3,SEC61A1,UBQLN2,UBQLN1,DNAJB2,DNAJA1,HSPA1B,HSPA5,HSPA8,HSP90AB1,DNAJB1,STT3A,LMAN1,ATXN3,EIF2AK4,ATF4,NFE2L2,P4HB,DERL2,SAR1B,UBE2J1,UBE2D4,DNAJC10,DNAJB12,SEC61A2,YOD1,NPLOC4,EDEM2,NGLY1,PRKCSH,NSFL1C,MAPK8,MAPK9,MAP2K7,DNAJC3,UGGT1,UBQLN4,MAN1C1,BAG1,BAK1,BAX,RAD23A,RAD23B,RNF5,RPN1,RPN2,RRBP1,SEC13,SEL1L,DNAJC1,SIL1,SSR1,SSR2,SSR3,SSR4,SEC62,HSP90B1,TRAF2,UBE2D1,UBE2D2,UBE2E1,UBE2E2,UBE2G1,UBE2G2,UFD1L,VCP,WFS1,XBP1,MOGS,DERL1,TUSC3,EDEM3,UBXN6,CALR,CANX,CAPN1,CAPN2,SYVN1,MBTPS1,PLAA,EIF2AK3,BAG2,SEC24C,EDEM1,HERPUD1,RBX1 hsa03040 Spliceosome99 128 5869 2739 7.55E-13 4.32E-11 PQBP1,SMNDC1,BCAS2,SF3A1,PPIE,PPIH,CHERP,SLU7,PRPF8,USP39,TXNL4A,TCERG1,SRSF8,SF3A3,SF3B2,SNRNP27,LSM6,DDX42,CCDC12,ZMAT2,DDX5,DHX15,HNRNPA3,PUF60,NCBP2,ACIN1,SNRNP200,U2SURP,SF3B3,SF3B1,LSM5,PRPF6,LSM4,SYF2,PRPF31,LSM3,PRPF19,TRA2A,HNRNPA1,HNRNPC,HNRNPK,HNRNPU,HSPA1B,HSPA8,MAGOH,HNRNPM,NCBP1,PCBP1,CRNKL1,CWC15,LSM7,WBP11,PLRG1,MAGOHB,PRPF38B,PRPF40A,RBM22,XAB2,THOC2,LSM2,SRSF1,SRSF2,SRSF3,SRSF4,SRSF6,SRSF7,TRA2B,SNRNP70,SNRPA,SNRPB,SNRPB2,SNRPC,SNRPD1,SNRPD2,SNRPD3,SNRPE,SNRPF,U2AF1,DDX39B,SF3A2,SF3B5,THOC3,DHX16,PHF5A,PRPF38A,PRPF18,SRSF9,BUD31,SART1,PRPF4,PRPF3,EFTUD2,SNRNP40,DDX23,AQR,EIF4A3,DDX46,CDC5L,THOC1 hsa03018 RNA degradation59 71 5869 2739 1.93E-10 8.85E-09 TOB1,MPHOSPH6,C1D,TOB2,BTG3,PAPD7,LSM6,EXOSC8,DDX6,DCP2,DHX36,DCP1B,ENO2,PATL1,XRN2,DIS3,EXOSC7,CNOT1,EXOSC2,SKIV2L2,EDC4,LSM5,PAN3,LSM4,CNOT10,PABPC1,LSM1,LSM3,DCPS,CNOT7,HSPA9,HSPD1,CNOT2,CNOT3,CNOT4,PABPC3,PARN,EXOSC3,EXOSC1,LSM7,EXOSC9,EXOSC10,XRN1,EXOSC4,DCP1A,EXOSC5,CNOT6,LSM2,SKIV2L,BTG1,BTG2,EDC3,WDR61,PNPT1,PABPC4,RQCD1,CNOT8,TTC37,PAN2 hsa05220 Chronic myeloid60 leukemia73 5869 2739 3.28E-10 1.25E-08 AKT3,CDK4,CDK6,CDKN1A,CDKN1B,CHUK,CRK,CRKL,CTBP1,E2F1,E2F2,E2F3,AKT1,AKT2,ABL1,SHC2,GRB2,HDAC1,HDAC2,HRAS,IKBKB,ARAF,KRAS,SMAD3,SMAD4,MDM2,MYC,NFKB1,NFKBIA,NRAS,PIK3CA,PIK3CB,PIK3R1,PIK3R2,SHC3,MAPK1,MAPK3,MAP2K1,MAP2K2,BAD,PTPN11,RAF1,RB1,CCND1,RELA,BCL2L1,BCR,SHC1,SOS1,SOS2,STAT5B,TGFB1,TGFB2,TGFBR1,TGFBR2,TP53,PIK3R3,CBL,CBLB,GAB2 hsa03008 Ribosome biogenesis65 in81 eukaryotes5869 2739 4.32E-10 1.41E-08 RCL1,MPHOSPH10,POP7,EMG1,NXF1,NOP56,RPP30,RPP38,POP4,RPP40,UTP14A,WDR3,POP1,WDR36,RPP25L,CSNK2A1,CSNK2A2,CSNK2B,SPATA5,DKC1,FBL,XRN2,WDR43,GTPBP4,REXO2,GNL3,RRP7A,NOB1,DROSHA,NXT1,GNL2,EIF6,NVL,NMD3,FCF1,UTP18,POP5,NOP58,GAR1,XRN1,GNL3L,RPP25,HEATR1,RBM28,NAT10,IMP3,LSG1,NHP2,RIOK2,UTP6,NXT2,REXO1,PWP2,RAN,NOL6,TAF9,TCOF1,XPO1,EFTUD1,RIOK1,WDR75,UTP15,CIRH1A,IMP4,BMS1 hsa04120 Ubiquitin mediated100 proteolysis139 5869 2739 8.83E-10 2.53E-08 UBA2,SAE1,HUWE1,STUB1,UBE4B,ANAPC10,PIAS3,UBE2E3,WWP1,WWP2,UBE2F,DDB1,DDB2,TRIM32,RHOBTB2,FBXW11,MGRN1,PPIL2,CDC26,ANAPC13,RCHY1,HERC4,FBXW8,UBE2S,PRPF19,ANAPC2,ANAPC4,UBE2K,BIRC2,XIAP,MDM2,MAP3K1,MID1,TRIM37,NEDD4,FZR1,UBR5,ANAPC7,UBE2J1,ANAPC11,PIAS4,UBE2D4,UBE2R2,DET1,FANCL,UBA6,UBE2W,UBE2Q1,KLHL9,SMURF1,BIRC6,UBE2O,RFWD2,ANAPC1,SMURF2,SKP2,UBE2Z,BRCA1,TCEB1,TCEB2,TRAF6,UBE2B,UBE2D1,UBE2D2,UBE2E1,UBE2E2,UBE2G1,UBE2G2,UBE2H,UBE2L3,VHL,CUL5,ITCH,SYVN1,CUL4B,CUL4A,CUL3,CUL2,PIAS1,SOCS1,CBL,CBLB,CDC23,CDC16,HERC2,HERC1,BTRC,SOCS3,UBA3,UBE2M,UBE2Q2,TRIP12,UBE4A,RNF7,KEAP1,CUL7,CDC20,CDC27,CDC34,RBX1 hsa04722 Neurotrophin88 signaling 127pathway 5869 2739 1.61E-07 4.09E-06 AKT3,SH2B3,SH2B2,ZNF274,FRS2,YWHAQ,PRDM4,CRK,CRKL,CSK,AKT1,AKT2,FOXO3,ABL1,GAB1,SHC2,RPS6KA6,GRB2,RAPGEF1,GSK3B,HRAS,IKBKB,IRS1,JUN,KRAS,RHOA,ARHGDIA,ARHGDIB,MAP3K1,MAP3K3,ATF4,NFKB1,NFKBIA,NGFR,NRAS,PDK1,PIK3CA,PIK3CB,PIK3R1,PIK3R2,PLCG1,SHC3,PRKCD,MAPK1,MAPK3,MAPK7,MAPK8,MAPK9,MAP2K1,MAP2K2,MAP2K5,MAP2K7,PSEN1,PSEN2,BAD,KIDINS220,PTPN11,BAX,RAC1,RAF1,RAP1B,RELA,RPS6KA2,RPS6KA3,SORT1,MAPK12,SHC1,SOS1,SOS2,TP53,TRAF6,YWHAB,YWHAE,YWHAG,YWHAH,YWHAZ,CALM1,CALM3,CAMK2D,CAMK2G,IRS4,PIK3R3,IRS2,RIPK2,RPS6KA4,MAPKAPK2,MAGED1,CDC42 hsa03015 mRNA surveillance61 pathway83 5869 2739 5.33E-07 1.22E-05 SRRM1,SAP18,NXF1,HBS1L,CPSF4,PAPOLA,RNPS1,CLP1,NUDT21,CPSF6,CSTF1,CSTF2,CSTF3,ETF1,CASC3,NCBP2,ACIN1,CSTF2T,SMG6,SMG5,GSPT2,UPF2,DAZAP1,PABPC1,PPP2R3B,NXT1,GSPT1,CPSF1,MAGOH,MSI1,NCBP1,PABPC3,PCF11,CPSF3,CPSF2,PNN,MAGOHB,PPP2CA,PPP2CB,PPP2R1A,PPP2R1B,PPP2R3A,PPP2R5A,PPP2R5B,PPP2R5D,PPP2R5E,PPP2R2D,NXT2,UPF1,PAPOLG,UPF3B,DDX39B,CPSF7,PABPN1,SYMPK,WIBG,RNMT,RNGTT,PABPC4,EIF4A3,SMG7 hsa05210 Colorectal cancer48 62 5869 2739 6.63E-07 1.38E-05 AKT3,CTNNB1,AKT1,AKT2,GSK3B,APC,BIRC5,ARAF,JUN,KRAS,RHOA,SMAD2,SMAD3,SMAD4,MLH1,MSH2,MSH3,MYC,LEF1,PIK3CA,PIK3CB,PIK3R1,PIK3R2,CYCS,MAPK1,MAPK3,MAPK8,MAPK9,MAP2K1,BAD,BAX,RAC1,RAC2,RAC3,RAF1,CCND1,TCF7L2,TGFB1,TGFB2,TGFBR1,TGFBR2,TP53,AXIN1,AXIN2,TCF7L1,CASP3,CASP9,PIK3R3 hsa04142 Lysosome 82 121 5869 2739 1.81E-06 3.45E-05 AP1M2,AP3S2,NPC2,AP4B1,CTSC,AP3M2,AP4S1,AP1S1,TPP1,CLN5,CLTA,CLTB,CLTC,AP1S3,CTNS,CTSB,CTSD,CTSH,CTSK,CTSO,CTSZ,AP1B1,AP1G1,AGA,DNASE2,GGA2,GGA3,AP4E1,ABCB9,PLA2G15,GAA,MFSD8,GALNS,GGA1,GBA,SLC17A5,AP3M1,GLA,GLB1,GM2A,GNS,GUSB,HEXB,IGF2R,LAMP1,LAMP2,M6PR,ARSA,MANBA,ASAH1,NAGA,NAGLU,NEU1,NPC1,SLC11A2,NAGPA,ATP6V0C,ACP2,ATP6V0B,ATP6V0A1,ATP6AP1,CTSA,LAPTM4B,PPT1,LGMN,PSAP,MCOLN1,SORT1,SGSH,SMPD1,GNPTG,AP3B1,CD164,AP1S2,AP1M1,AP3D1,ATP6V0D1,AP4M1,SCARB2,ENTPD4,CD63,LAPTM4A hsa05212 Pancreatic cancer52 70 5869 2739 2.15E-06 3.79E-05 AKT3,CDK4,CDK6,RALBP1,CHUK,E2F1,E2F2,E2F3,AKT1,AKT2,IKBKB,ARAF,JAK1,KRAS,SMAD2,SMAD3,SMAD4,NFKB1,PIK3CA,PIK3CB,PIK3R1,PIK3R2,MAPK1,MAPK3,MAPK8,MAPK9,MAP2K1,BAD,RAC1,RAC2,RAC3,RAD51,RAF1,RALA,RALB,RB1,CCND1,RELA,BCL2L1,BRCA2,STAT1,STAT3,TGFB1,TGFB2,TGFBR1,TGFBR2,TP53,VEGFA,VEGFB,CASP9,PIK3R3,CDC42 hsa05016 Huntington's116 disease 183 5869 2739 2.84E-06 4.61E-05 DNAL4,ATP5H,CREB3,DCTN2,PPARGC1A,AP2M1,AP2S1,CLTA,CLTB,CLTC,NDUFA11,COX4I1,COX5B,COX6B1,COX6C,COX7B,COX8A,CREB1,CREBBP,CYC1,AP2A1,AP2A2,AP2B1,DCTN1,EP300,RCOR1,GNAQ,GPX1,SLC25A4,SLC25A5,SLC25A6,UQCR10,HTT,HDAC1,HDAC2,HIP1,APAF1,NDUFS7,NDUFA1,NDUFA2,NDUFA4,NDUFA6,NDUFA7,NDUFA8,NDUFAB1,NDUFB1,NDUFB4,NDUFB5,NDUFB6,NDUFB7,NDUFB9,NDUFC1,NDUFC2,NDUFS1,NDUFS2,NDUFV1,NDUFS4,NDUFS6,NDUFS8,NDUFV2,NDUFV3,ATP5A1,ATP5C1,NDUFA13,DCTN4,ATP5D,ATP5E,ATP5F1,ATP5G1,ATP5G3,ATP5J,PLCB3,CYCS,POLR2B,POLR2C,POLR2D,POLR2E,POLR2F,POLR2G,POLR2H,POLR2I,POLR2J,POLR2K,POLR2L,NDUFB11,PPID,IFT57,NDUFA12,BAX,REST,SDHA,SDHB,SDHC,CREB3L2,SOD1,SP1,TAF4,TAF4B,TBP,TFAM,TGM2,TP53,UQCRC1,UQCRC2,UQCRH,VDAC1,VDAC2,VDAC3,DNALI1,DNAL1,CASP3,CASP9,CREB3L1,COX7A2L,COX5A,TBPL1 hsa05215 Prostate cancer63 89 5869 2739 3.02E-06 4.61E-05 AKT3,CDK2,CDKN1A,CDKN1B,CREB3,CHUK,CREB1,CREBBP,CTNNB1,E2F1,E2F2,E2F3,EP300,AKT1,AKT2,FOXO1,MTOR,GRB2,GSK3B,GSTP1,HRAS,HSP90AB1,IGF1R,IKBKB,AR,ARAF,KRAS,MDM2,ATF4,NFKB1,NFKBIA,NRAS,LEF1,PDGFA,PDGFRB,PDPK1,PIK3CA,PIK3CB,PIK3R1,PIK3R2,MAPK1,MAPK3,PDGFC,MAP2K1,MAP2K2,BAD,PTEN,RAF1,RB1,CCND1,RELA,CREB3L2,SOS1,SOS2,TCF7L2,TP53,HSP90B1,TCF7L1,CASP9,PIK3R3,CCNE1,CREB3L1,CCNE2 hsa04115 p53 signaling51 pathway 69 5869 2739 3.47E-06 4.97E-05 CDK2,CDK4,CDK6,CDKN1A,GADD45G,CHEK1,CHEK2,SESN3,DDB2,GADD45A,RCHY1,SESN1,SFN,APAF1,IGFBP3,FAS,MDM2,MDM4,GADD45B,ATM,RRM2B,SERPINE1,SHISA5,GTSE1,CYCS,ATR,PTEN,BAX,CCND1,RRM2,PERP,RFWD2,ZMAT3,THBS1,TP53,TSC2,CASP3,SESN2,CASP9,PPM1D,TNFRSF10B,CCNB1,CCND2,CCND3,CCNE1,CCNG1,CCNB2,CCNE2,EI24,TP53I3,CDK1 hsa04310 Wnt signaling98 pathway151 5869 2739 3.75E-06 5.05E-05 NFAT5,FZD10,CHP1,CREBBP,PRICKLE1,CSNK1E,CSNK2A1,CSNK2A2,CSNK2B,CTBP1,CTNNB1,PRICKLE2,DVL2,DVL3,EP300,DKK1,DAAM1,FBXW11,FRAT2,FZD2,CACYBP,GSK3B,APC,JUN,RHOA,LRP6,SMAD2,SMAD3,SMAD4,MYC,NFATC3,NFATC4,LEF1,NLK,PLCB3,PPARD,PPP2CA,PPP2CB,PPP2R1A,PPP2R1B,PPP2R5A,PPP2R5B,PPP2R5D,PPP2R5E,PPP3CA,PPP3CB,PPP3CC,PPP3R1,PRKACA,PRKCA,MAPK8,MAPK9,PRKX,PSEN1,CTNNBIP1,VANGL2,CHD8,RAC1,RAC2,RAC3,SENP2,CCND1,ROCK1,SFRP1,SFRP2,SOX17,PORCN,MAP3K7,TCF7L2,TP53,WNT5A,WNT8A,WNT10B,FZD5,TBL1XR1,FZD3,FOSL1,CAMK2D,CAMK2G,VANGL1,AXIN1,AXIN2,FZD1,FZD6,FZD7,FZD8,TCF7L1,NKD1,NKD2,RUVBL1,CCND2,BTRC,CCND3,WNT3A,TBL1Y,CER1,ROCK2,RBX1