Table 1. Genes that showed condition-specific interactions with query genes that were statistically significant after multiple test correction (q < 0.05).
| Query | Drug | Interaction | Significant Genes |
|---|---|---|---|
| HRQ1 | CPT | Negative | ASF1, CHL1, CLB5, CTF4, DCC1, DDC1, MMS1, MMS22, MRE11, PBY1, RAD17, RAD24, RAD52, RAD54, RAD55, RAD57, RAD59, RTT101, RTT109, SAE2 |
| HRQ1 | CPT | Positive | CYC8, GMH1, PDA1 |
| HRQ1 | HU | Negative | ARP4, ASF1, BAS1, BMH1, BRE1, CLB5, ERG5, ERJ5, GCN1, GCN20, GET2, GNP1, HPC2, IRA2, LAT1, LGE1, LST4, MET18, MFT1, MKS1, MRC1, MRE11, NPR1, PBS2, PDB1, PDE2, PMR1, POL32, RAD52, RAD54, RAD55, RAD57, RIM21, RPL34B, RPS21B, RTF1, RTG3, RTT109, SDC1, SEC22, SEC66, SEC72, SGF73, SNX4, SPF1, SUA7, SWD1, SWD3, SWI4, SYC1, UBA3, UBP15, UBP6, URE2, VPS8, YTA7 |
| HRQ1 | HU | Positive | AIM21, APS3, ARO1, ARP7, BTS1, BUL1, CAP1, COQ2, CUE3, CYC8, CYT1, DCR2, FEN1, HOS2, MSS18, NGL2, PET130, THI6, YMR102C |
| HRQ1 | MMS | Negative | DAL81, FKS1, GFD1, GFD2, GNP1, MMS2, MOG1, MPH1, MRE11, MSH4, PBY1, PET18, PHO5, POL32, RAD10, RAD18, RAD27, RAD59, REV1, REV3, REV7, RVS161, SAK1, SCS7, SRO9, STP1, TRS33, UBC13, VMA21, YGL081W, YSY6 |
| HRQ1 | MMS | Positive | CLB5, HST3, ILM1, KAP122, PMR1, SUR4 |
| RTT107 | CPT | Negative | AGE2, BCK1, BFA1, BUB2, CHS5, CLB2, CLB5, COG5, CRN1, CSG2, DCC1, DDC1, DEP1, ECM33, ELA1, ERV14, FET3, FKS1, FUN30, GAS1, HPC2, IRA2, IRC21, KEX2, LAS21, LEM3, LGE1, LTE1, MAK31, NCL1, OPI3, OST3, PAC1, PBY1, PEP8, PFA4, PMT1, PMT2, PPH21, PPH3, PPM1, PRE9, PSP2, RAD17, RAD24, RAD54, RAD55, RAD57, RAD61, RDH54, RDI1, REV7, RGA1, RRD2, RTF1, RTS1, RXT2, SAP30, SCS7, SEC22, SEC28, SLA1, SMI1, SMY1, SPF1, SRO9, STV1, SUR4, SWI4, TPK3, UBP14, VPS24, VPS27, VPS29, VPS35, VPS5, VPS8, VPS9, YDR061W, YJR088C, YLR426W, YPL150W, ZDS1 |
| RTT107 | CPT | Positive | APQ12, ARP7, BUB1, BUB3, CDC28, CYC8, CYT1, DBF2, DPB4, ELC1, ELG1, ESS1, GAC1, GAL80, HDA1, IKI3, IPT1, JHD2, LIA1, MIP1, MKK2, MMS4, MRC1, MRT4, NAP1, NCS2, NFI1, NOP12, OAF1, PAP2, PEF1, POL32, PSY4, RAD27, RPL11B, RPL8B, RPS1B, RPS4A, RSC4, SAC3, SAM37, SCT1, SFL1, SGF29, SLC1, SMT3, SPT2, SSN2, TED1, TOP1, TRM10, TUB3, TUP1, UBX4, UFO1, YCR050C, YLR287C, YNR004W |
| RTT107 | HU | Negative | AGE2, BAS1, BUB2, CRN1, DUG2, GCN1, IRA2, MAD2, NPR1, OXR1, PBS2, PSP2, SEC22, SER2, SLX9, SLY41, SPF1, SUR4, SWI4, URE2, YDL089W |
| RTT107 | HU | Positive | AEP2, AIM26, ARO1, ARP7, BTS1, BUB3, BUD21, BUD6, BUL1, CDC48, CYC8, CYK3, CYT1, DBP1, ECM5, ERG6, HDA1, JNM1, LAG1, MET22, NAP1, NUP2, PEF1, PET130, PEX17, PMR1, POL30, PPM1, RIM101, RPN13, RPS1B, RPS28B, RPS30A, SCT1, SEF1, SPE3, SPT21, SSE1, THI6, TSA1, UBX4, UFO1 |
| RTT107 | MMS | Negative | BCK1, BFA1, CLB2, CRN1, DDC1, DUG2, FKS1, GFD1, GNP1, HRT1, IRC21, LSM7, LTE1, MBP1, MMS2, PAC1, POL30, PPM1, PTC2, RAD17, RAD18, RAD27, REV7, RTS1, SCS7, SLX9, SRO9, SRS2, STP1, TEL1, TSA1, UBC13, VMA21, YGL081W, YPL041C |
| RTT107 | MMS | Positive | AIM29, APQ12, ARO1, BMH1, BTS1, CSM3, CYT1, DBF2, DOT1, ELC1, FEN1, GAL80, GSF2, HST3, ILM1, LGE1, MRC1, MSS18, NAM7, NPP1, PER1, RAD52, RMD11, ROT2, RPL8B, RPS1B, RPS4A, RSC4, SPT2, TEP1, TMA23, TOP1, TUB3, UFO1 |
| SLX4 | CPT | Negative | ARP4, ASF1, CHL1, CIK1, CLB5, CSM3, CTF4, DCC1, DDC1, DIA2, GAS1, LAS21, LEM3, LGE1, MMS1, MMS22, PBY1, PMR1, PPH3, RAD17, RAD24, RAD52, RAD54, RAD55, RAD57, RAD59, RDI1, RTT101, RTT109, SAE2, SGF73, SRS2, STV1 |
| SLX4 | HU | Negative | AGE2, AIM32, ARL3, ARP4, BAS1, BMH2, BRE1, CLB5, COG5, CWH41, DDC1, ECM30, ERG5, ERJ5, FKH2, GCN1, GCN20, GEF1, GNP1, HCM1, HPC2, INP53, IRA2, LGE1, LST4, MDS3, MRE11, NPR1, OXR1, PBS2, PBY1, PDB1, PDE2, PFA4, PMR1, PRE9, PSP2, QCR10, QNQ1, RAD54, RAD55, RAD57, RPL41B, RPS11A, RTF1, SDC1, SEC22, SEC66, SGF73, SKY1, SNG1, SPF1, STV1, SUA7, SUR4, SWD1, SWD3, SWI4, SYC1, SYF2, UBP15, URE2, VPS27, YDR061W, YER064C, YPR063C, YSY6 |
| SLX4 | HU | Positive | APS3, BTS1, BUL1, CAP1, CDC36, COQ2, CYT1, FEN1, HOS2, IMP2, MDM38, MFT1, MSS18, NGL2, PET123, PET130, RPL43A, RPN13, SCD6, SPT21, TAF9, TOP1, YDL176W, YIP3 |
| SLX4 | MMS | Negative | CKB1, DIA2, ENT4, ERV25, GFD1, GNP1, HST3, IMP2, MMS2, MPH1, PAC1, PET18, POL32, PPH3, PSY3, RAD18, RAD26, RAD27, RAD59, REV3, REV7, RRD1, SAE2, SAP185, SCS7, STP1, TOM7, TSR3, UBC11, UBC13, VMA21, YGL081W |
| SLX4 | MMS | Positive | BUD14, DOT1, MSH4, NAM7, RPS21B |
CPT, camptothecin; HU, hydroxyurea; MMS, methyl methane-sulfonate.