Table 1.

List of significantly modulated genes by the treatment with the combination of BI-D1870 and ipatasertib. Gene lists of the clusters C1 and C5 in Figure 4C.

Cluster in Figure 4C	Gene Expression Change		Gene List
	Treatment
	BI-D1870 or Ipatasertib	Combination
C1	Significant downregulation compared to untreated cells	More significant downregulation compared to that induced by either BI-D1870 or ipatasertib	NBPF3 PIGV STX12 OXCT2P1 BTBD8 LCE1E MGST3 UBR4 EVA1B CLDN19 PLPPR5 NBPF15 NBPF20 CBX7 LOC100131107 THBS3 GREM2 OR2T35 ACKR1 NBPF10 GBA CHIT1 MSGN1 KRTCAP3 C2orf73 BCL2L11 DNAJB2 DAW1 TGFA DLX2 PDE6D CAMP RHO ZNF445 MYL3 PRICKLE2 ZXDC C3orf36 SLC7A14 PIGZ NFKBIZ PFKFB4 POPDC2 TMEM175 BLOC1S4 USP17L19 USP17L24 MED15 USP17L25 METTL14 ADAD1 TLR10 PAPSS1 CPZ DUX4 PCDHB11 CDH12 MOCS2 MTRNR2L2 MCTP1 SLC36A2 NMUR2 TRIM7 ZNF76 NCR2 FAM83B SDHAF4 PNRC1 SMIM29 CRISP2 PLAGL1 RSPH3 ADGRF2 CAGE1 H2BC4 GABBR1 RAMP3 ZKSCAN1 DPY19L1 HERPUD2 ERVW-1 TCAF1 ZNF705D P2RX6 FAM160B2 SDCBP GPAA1 RMDN1 KCNV2 TMEM8B OR1J4 GPR21 RALGPS1 AK8 CDKN2B SYAP1 SLC16A2 TKTL1 ITIH6 KCNE5 TSPY2 WAC DPYSL4 ST8SIA6 CALHM2 AKR1C1 SMPD1 OR5L1 OR4D9 C11orf86 TTC12 C11orf40 OR51G1 OR56A5 KRTAP5-10 WNT5B C12orf54 HIGD1C SCYL2 SIRT4 HNF1A AKAP3 TAS2R42 BAZ2A APPL2 MYL6 ACAD10 CD163L1 R3HDM2 CCDC92 CRYL1 RGS6 GSKIP PRKCH RTF1 GJD2 ITGAD FOXL1 LMF1 TBX6 MTRNR2L1 RAPGEFL1 TBCD NATD1 SRCIN1 KRTAP2-3 RETREG3 ASB16-AS1 PLEKHM1 CD300LB CEP131 KRTAP9-8 PRKAR1A TBC1D3L EPG5 TNFAIP8L1 GPR42 USP29 CLEC4G BORCS8 TYROBP WDR87 CEACAM7 EYA2 CD93 ZNF334 LIPI LRRC74B UPB1 YPEL1
C5	Significant upregulation compared to untreated cells	More significant upregulation compared to that induced by either BI-D1870 or ipatasertib	GPR3 EIF3I UTP11 LRRC42 CFHR5 TIMM17A TMEM183A SDF4 ICMT ACOT7 MRPS15 GNL2 SF3A3 MAGOH ITGB3BP GCLM VAV3 ANP32E SLC41A1 MICOS10 SELENOI WDR43 CCT7 MRPL35 RPIA DDX18 AGPS XRCC5 ITGB1BP1 CEBPZ PNPT1 CCT4 TACR1 NIFK CHN1 HSPD1 LBH SNRNP27 CCDC138 RNASEH1 MRPS22 KCNAB1 CCDC12 NEPRO MRPL3 ANAPC13 A4GNT GK5 TMEM183B NRROS HIGD1A TWF2 ETV5 TMEM165 HADH GAR1 PLK4 NOP14 PPAT CCNA2 UFSP2 SLC39A8 CCT5 ISOC1 UNC5A OXCT1 ETF1 LARS1 GEMIN5 ZNF131 CDKAL1 MAD2L1BP NUS1 MYCT1 KCNK16 PKHD1 MMS22L SEC63 HDDC2 FBXO5 TCP1 PTP4A1 GMDS EEF1E1 NUP42 TMEM270 ASB4 DLD ST7 PRKAR1B DDX56 SBDS POM121C ASZ1 CHCHD3 SLC25A37 ZFHX4 ZNF7 C8orf33 LSM1 THAP1 UBXN8 DNAJA1 FOXB2 CENPP WDR5 MRPS2 TRUB2 MSANTD3 AWAT1 CSTF2 TCP11X2 STK26 HDAC8 MORF4L2 SERPINA7 NKRF CDY2B TXLNGY CDY1 HSPA14 PDSS1 VDAC2 LARP4B ZWINT TBATA FGFBP3 SFXN4 MRPL23 IPO7 LINC02687 P2RX3 RNF169 ACER3 DEUP1 JAM3 DEAF1 MRPL17 GALNT18 NUP160 SSRP1 ALG8 MMP3 TMX2- CTNND1 RASSF3 MSRB3 C12orf45 RIC8 FAM216A CRACR2A YARS2 IKBIP PPTC7 NDUFA9 PA2G4 PTPRQ C12orf73 MRPL57 BORA ALG5 MZT1 RUBCNL CARMIL3 AP5M1 TRMT61A ZNF219 PRMT5 PSMB5 TICRR PLA2G4F SHF TIPIN MMP25 ALDOA PSMD7 HSBP1 PDZD9 EMC8 ZNF689 CTRL PSMB6 PFAS ALKBH5 TRAF4 CISD3 C17orf80 FAM83G POLDIP2 BLMH CWC25 ETV4 ATXN7L3 CCDC182 C17orf58 CD300LF RSKR KAT2A CCDC47 GH2 EMILIN2 TIMM21 DAZAP1 CARM1 GPATCH1 WDR62 MRPS12 NR2C2AP CCNP SPINT2 CST2 WFDC9 ANKEF1 RAB5IF TGIF2-RAB5IF WDR4 SLC19A1 ATF4 BID PISD TTLL12 DRG1 SAMM50