Table 2.
Selected common differentially expressed gene groups upon treatment with all drugs (cisplatin, topotecan and paclitaxel).
| A. Up-regulated genes | |
| Apoptosis | BMF, CASP3, CASP7, EMP1, FADD, FOSL2, NOL3, PDCD2L, PERP, PHLDA2, ZNF443, BIRC3, BCL2A1 |
| Cell adhesion | BAIAP1, CELSR3, CLDN2, CLDND1, COL15A1, COL17A1, COL8A1, CSPG3, GJA10, OIP5, SSX2IP, SYMPK, TNXB |
| Cell growth and maintenance | CDCA7, DCC1, KNTC2, NRG4, PRC1, SPATA5L1, TGFA, NOV |
| Cell cycle | CNNM4, BUB1, CCNB2, CDC20B, CDCA2, CKS2, KIF23, PKMYT1, CDCA5, FLJ23311 |
| Cytoskeleton | ANXA9, C16orf5, CKAP2, K-ALPHA-1, KIAA1524, KIF18A, PALMD, SDCBP, SPTAN1, TUBB2, TUBB3, TUBB6 |
| DNA replication and repair | BRCA1, BRCA2, DDB2, FANCA, MCM10, MCM8, NP, PCNA, PTTG1, RPA3, POLA2, RRM1 |
| Cell cycle arrest | BTG3, CDKN1A, CDKN2D, GMNN, HIS1, RFP2 |
| Regulation of transcription | DAZL, DXYS155E, ELL2, HPS3, KLF5, LHX2, NR4A1, PER2, PHTF1, POLR2A, RFXAP, ST18, TAL2, TRIP13, ZNF211, ZNF304, ZNF326, ZNF483, ZNF529, ZNF541, ZNF550, ZNF555, ZNF646, ZNF701, ZIC4 |
| Response to stress | AHR, HSFY2, HSPH1, MICB, TXNDC, YWHAB |
| Intracellular signaling (signal transduction) | ASB3, AURKC, CALM2, CXXC4, DBF4B, DGKG, DKK1, DUSP8, DUSP9, EFNA3, FZD4, GPR109B, GPR6, IMP-1, MIP, MS4A3, NMI, NRAS, NYD-SP25, OR5P2, OR6K2, OR9I1, PDC, RAB21, RAB2B, RACGAP1, RGS13, RKHD3, SH2D1A, STMN1, STRN4, TAS2R60, WNT10A |
| Transport | ABCC9, AQP11, ATP2B3, CACNB1, CHAC2, KCNJ9, MGC29671, NUP107, Shax3, SLC19A2, SLC25A17, SLC7A8, TRPM6, TXNL5, RAMP |
| B. Down-regulated genes | |
| Apoptosis | AIFM3, BCLAF1, DAPK3, DOCK1, FAF1, FKSG2, GADD45B, HIPK2, NALP12, NTN1, SPOCK, TNFRSF6B, YARS |
| Cell adhesion | CASK, CD151, CIB3, CLDN18, CLDN5, CNTN4, GJC1, ITGB1, ITGB3BP, ITM2C, LAMA5, LOC388419, PKP4, PSTPIP1, PTK7, TNR |
| Cell growth and maintenance | TBC1D5, CDC2L5, HDGF2, AKIP, AAMP, LRPAP1, MATK, PDAP1, PPARGC1B, SIPA1L3, TPD52L2, MT3, POLDIP2, POLDIP3, SET, ASCC3 |
| Cytoskeleton | ACTR1B, ARPC1A, ARPC4, CKAP1, CORO1B, DNAI2, FMNL1, KRT6C, PALM2, SPAG7, SPTBN5, TNK2, TUBGCP2, VILL, YWHAG |
| Response to stress | CAMP, CEBPE, DEFB1, DEFQ1, GATA3, HSPA1A, HSPA12B, NOD27 |
| Immune & inflammatory response | ALCAM, AMBP, C1QB, C1QL1, C5, CD2BP2, COLEC11, HLA-A, HLA-B, HLA-E, HLA-F, IFI35, IGSF4, IL16, KIR3DL3, LAT, OAS3, R30953_1, RFX1, SAA2, TNFRSF13B, TREM1, CARD10, CCL19, EDARADD, LGALS9, SN |
| Lipid metabolism | ACAA1, AKR1C3, APOE, ARH, ASAH1, CHKA, GPX4, HDLBP, HMGCS1, INPP5E, LDLR, MGLL, PCCB, PEMT, PIP5K2A, PLA2G12B, PLCB3, PRKAG1, PTE1 |
| Metabolism (other than lipid metabolism) | ADH5, AK5, AKR1C1, ALDH4A1, ALDOA, ASMTL, ATAD4, B4GALT2, BCDO2, CA5A, CHST7, CYP11A1, DHPS, DHRS10, DOT1L, DPYD, ENO1, ENO1B, FBXW5, GAL3ST3, GMDS, GRHPR, HAAO, HCG9, HK2, HPD, IMPDH2, INSR, ISOC2, ITGB1BP2, ITIH2, LARGE, LEPREL2, MAT2A, MPPED1, MSRA, MVK, NAT6, NNMT, NUDT14, PGAM5, PHGDHL1, PKLR, PTPRG, PYGM, RDH13, SDHA, TKT |
| Protein biosynthesis & modification | C19orf28, CRYL1, EEF1A2, EEF1D, EEF1G, EIF3S5, EIF3S8, EIF4B, EIF4G1, EIF5A, HAGHL, KRT6E, MRPL12, MRPL23, RPL10L, RPL6, RPS14, RPS19, RPS2, RPS9, VARS2, ANKRD13D, ATAD3A, ATAD3B, AFG3L2, ADCK1, ADCY5, BCKDK, CRYAA, DUSP15, FKBP10, FLOT1, GALNT9, HKE2, KIAA1542, MAP2K2, MTMR4, PARP10, PCTK2, PPP2R4, PPIB, SERPINH1, SIL1, SRPK2, SSTK, ST3GAL4, WNK2 |
| Cell cycle | CCND1, DLG1, DNM2, DDIT3, EXT1, MAD1L1, PLK1, PPP1R9B, SEPT2, STAG1 |
| Regulation of transcription | ARID3A, ASCL2, ATF4, CIRBP, CITED4, CORO1A, DBP, DEAF1, EWSR1, FOXQ1, GSCL, HES6, HMG20B, ING5, IPF1, KLF13, LBX1, MAF1, MBD3, MED25, MED31, MLLT1, NKX2-8, P4HB, PITPNM1, POLR1A, POLR2E, PRDM9, SEC8L1, SOX4, TBL1XR1, TCF25, TEAD2, TGFB1I4, VGLL4, ZFP276, ZFPM1, ZNF214, ZNF225, ZNF425, ZNF511, ZNF569, ZNF768, DHCR24, MXD4, TUFM |
| RNA processing | RALY, SURF6, ARL6IP4, CPSF3L, DDX56, HNRPA2B1, HNRPAB, LOC144983, PABPC4, PARN, PSD, RPP40, SFRS5, SNRPB, SNRPN, U1SNRNPBP |
| Intracellular signaling (signal transduction) | AKT2, ANKRD23, ARHGEF15, ARL2, BRE, CABIN1, CKB, CSF3, CSNK1A1L, DHH, FZD1, GNA15, GNAQ, GNB2L1, GPR172B, GPR31, GPR32, GPR37L1, GPS1, GRAP, GRK1, GRM4, HRMT1L2, IGF2R, IL17R, INADL, JAK1, KSR2, MAP4K5, MAPK12, MAPK13, MAPKAPK2, MRAS, NMBR, NRTN, NSMCE1, NXF, OMP, OPN1LW, OPRD1, OR2T5, OR2Z1, OR8G5, OXT, PDHA2, PIK3R2, PIK4CA, PITPNC1, PKIG, PRKCSH, PTK9L, PTPN11, PTPRM, RAB3D, RHO, RHOC, RHPN1, RSU1, SRGAP3, STK25, PAC1BP3, TMEPAI, TNNT3, TRIM54, USH1C, VRK3, WNT3A |
| Transport | ABCC4, ABCC6, ARL7, ATP1A3, ATP6V0E2, CACNG4, CHMP6, COL4A1, COX7A2L, CYBA, CYC1, ETFDH, EXOSC6, FMNL2, GABARAP, GRPEL1, HBM, HOXB8, ITPR2, ITPR3, KCNJ13, LMAN2, MGC19604, MLPH, MSCP, MYBBP1A, NBEA, NDUFS2, NDUFS6, PEX26, RAB1A, RALB, RAP2B, SCNN1D, SEC14L5, SEC24C, SEC61A1, SFXN4, SGNE1, SLC12A6, SLC17A6, SLC1A5, SLC25A24, SLC25A29, SLC25A6, SLC37A1, SLC6A8, SNX15, SNX17, SORT1, STX10, TIMM44, TLOC1, TMED9, TOMM40, TRAPPC6A, TRIAD3, TRPC5, TXN2, TXNRD1 |