Input Cluster (n=199) YAL053W YAR007C RFA1 YAR008W SEN34 YAR066W YBL002W HTB2 YBL003C HTA2 YBL015W ACH1 YBL035C POL12 YBL085W BOI1 YBR007C YBR070C YBR071W YBR073W RDH54 YBR088C POL30 YCL024W KCC4 YCL040W GLK1 YCL042W YCL043C PDI1 YCL061C MRC1 YCR065W HCM1 YDL003W MCD1 YDL010W YDL017W CDC7 YDL018C ERP3 YDL058W USO1 YDL059C RAD59 YDL061C RPS29B YDL070W BDF2 YDL072C YDL101C DUN1 YDL127W PCL2 YDL161W ENT1 YDL164C CDC9 YDL197C ASF2 YDR006C SOK1 YDR007W TRP1 YDR042C YDR058C TGL2 YDR097C MSH6 YDR113C PDS1 YDR115W YDR186C YDR224C HTB1 YDR225W HTA1 YDR297W SUR2 YDR309C GIC2 YDR399W HPT1 YDR507C GIN4 YDR510W SMT3 YDR525W-A SNA2 YEL031W SPF1 YEL047C YER003C PMI40 YER004W YER020W GPA2 YER070W RNR1 YER088C DOT6 YER094C PUP3 YER095W RAD51 YER111C SWI4 YER118C SHO1 YER152C YFR019W FAB1 YGL163C RAD54 YGL225W VRG4 YGR016W YGR109C CLB6 YGR189C CRH1 YGR204W ADE3 YGR221C TOS2 YGR279C SCW4 YHR110W ERP5 YHR153C SPO16 YHR154W RTT107 YHR204W MNL1 YHR214W YIL026C IRR1 YIL066C RNR3 YIL101C XBP1 YIL140W AXL2 YIL147C SLN1 YIL160C POT1 YJL026W RNR2 YJL115W ASF1 YJL173C RFA3 YJL181W YJL187C SWE1 YJL194W CDC6 YJL196C ELO1 YJR001W YJR043C POL32 YJR113C RSM7 YJR154W YKL007W CAP1 YKL008C LAC1 YKL042W SPC42 YKL045W PRI2 YKL101W HSL1 YKL112W ABF1 YKL113C RAD27 YKL116C PRR1 YKR077W YKR095W MLP1 YKR102W FLO10 YLL021W SPA2 YLL022C HIF1 YLR032W RAD5 YLR049C YLR103C CDC45 YLR104W YLR110C CCW12 YLR162W YLR237W THI7 YLR273C PIG1 YLR274W CDC46 YLR278C YLR283W YLR300W EXG1 YLR313C SPH1 YLR342W FKS1 YLR354C TAL1 YLR382C NAM2 YLR383W RHC18 YLR399C BDF1 YML027W YOX1 YML071C COG8 YMR076C PDS5 YMR135C DCR1 YMR179W SPT21 YMR279C YMR305C SCW10 YMR306W FKS3 YNL024C YNL030W HHF2 YNL031C HHT2 YNL033W YNL082W PMS1 YNL097C PHO23 YNL102W POL1 YNL104C LEU4 YNL181W YNL182C IPI3 YNL192W CHS1 YNL233W BNI4 YNL243W SLA2 YNL244C SUI1 YNL273W TOF1 YNL274C YNL282W POP3 YNL289W PCL1 YNL300W YNL302C RPS19B YNL312W RFA2 YNL313C YNR009W YOL006C TOP1 YOL007C YOL011W PLB3 YOL017W ESC8 YOL018C TLG2 YOL040C RPS15 YOL047C YOL136C PFK27 YOL151W GRE2 YOR033C EXO1 YOR074C CDC21 YOR075W UFE1 YOR098C NUP1 YOR099W KTR1 YOR213C SAS5 YOR246C YOR247W SRL1 YOR290C SNF2 YOR305W YOR313C SPS4 YOR323C PRO2 YOR327C SNC2 YOR342C YOR349W CIN1 YOR378W YPL015C HST2 YPL057C SUR1 YPL081W RPS9A YPL082C MOT1 YPL126W NAN1 YPL127C HHO1 YPL152W RRD2 YPL153C RAD53 YPL170W YPL255W BBP1 YPL258C THI21 YPL267W YPR017C DSS4 YPR018W RLF2 YPR075C OPY2 YPR120C CLB5 YPR135W CTF4 YPR174C YPR175W DPB2 Genes Not Found: YML100W-A MIPS Functional Classification Category p-value In Category from Cluster k f DNA synthesis and replication 1e-14 RFA1 POL12 POL30 CDC7 CDC9 RNR1 CLB6 RNR3 RNR2 RFA3 CDC6 POL32 PRI2 ABF1 RAD27 CDC45 CDC46 POL1 RFA2 TOP1 RLF2 CLB5 CTF4 DPB2 24 94 DNA processing 1e-14 RFA1 POL12 RDH54 POL30 CDC7 RAD59 DUN1 CDC9 MSH6 RNR1 RAD51 RAD54 CLB6 RNR3 RNR2 RFA3 CDC6 POL32 PRI2 ABF1 RAD27 MLP1 RAD5 CDC45 CDC46 RHC18 PMS1 POL1 TOF1 RFA2 TOP1 EXO1 SAS5 RAD53 RLF2 CLB5 CTF4 DPB2 38 251 CELL CYCLE AND DNA PROCESSING 6.95888e-13 RFA1 POL12 RDH54 POL30 KCC4 MCD1 CDC7 RAD59 DUN1 PCL2 CDC9 MSH6 PDS1 GIN4 RNR1 RAD51 SWI4 RAD54 CLB6 SPO16 IRR1 RNR3 RNR2 RFA3 SWE1 CDC6 POL32 SPC42 PRI2 HSL1 ABF1 RAD27 MLP1 RAD5 CDC45 CDC46 RHC18 PDS5 PMS1 POL1 CHS1 TOF1 PCL1 RFA2 TOP1 EXO1 SAS5 CIN1 NAN1 RAD53 BBP1 RLF2 CLB5 CTF4 DPB2 55 628 nucleus 7.73638e-09 RFA1 SEN34 HTB2 HTA2 POL12 POL30 HCM1 MCD1 CDC7 RAD59 DUN1 CDC9 SOK1 MSH6 PDS1 HTB1 HTA1 DOT6 PUP3 RAD51 SWI4 RAD54 RFA3 CDC6 POL32 PRI2 HSL1 ABF1 RAD27 MLP1 RAD5 CDC45 CDC46 BDF1 YOX1 SPT21 HHF2 HHT2 PMS1 POL1 POP3 RFA2 TOP1 CDC21 NUP1 SAS5 SNF2 MOT1 NAN1 HHO1 RAD53 RLF2 CTF4 DPB2 54 774 DNA recombination and DNA repair 5.71781e-08 RFA1 RDH54 POL30 RAD59 DUN1 CDC9 MSH6 RAD51 RAD54 RNR3 POL32 RAD27 MLP1 RAD5 RHC18 PMS1 TOF1 TOP1 EXO1 RAD53 20 153 chromosome 8.04385e-07 HTB2 HTA2 HTB1 HTA1 HHF2 HHT2 SAS5 NAN1 HHO1 RLF2 10 44 SUBCELLULAR LOCALISATION 1.06996e-05 RFA1 SEN34 HTB2 HTA2 ACH1 POL12 POL30 KCC4 GLK1 PDI1 HCM1 MCD1 CDC7 USO1 RAD59 RPS29B DUN1 ENT1 CDC9 SOK1 TRP1 MSH6 PDS1 HTB1 HTA1 SUR2 GIC2 YEL047C PMI40 DOT6 PUP3 RAD51 SWI4 SHO1 RAD54 VRG4 CRH1 ADE3 IRR1 RNR3 AXL2 SLN1 POT1 RNR2 RFA3 CDC6 POL32 RSM7 CAP1 SPC42 PRI2 HSL1 ABF1 RAD27 MLP1 FLO10 SPA2 RAD5 CDC45 CDC46 EXG1 SPH1 FKS1 TAL1 NAM2 BDF1 YOX1 SPT21 HHF2 HHT2 PMS1 POL1 LEU4 CHS1 BNI4 SLA2 SUI1 POP3 RPS19B RFA2 TOP1 TLG2 RPS15 CDC21 UFE1 NUP1 KTR1 SAS5 SNF2 SNC2 CIN1 RPS9A MOT1 NAN1 HHO1 RAD53 BBP1 DSS4 RLF2 CTF4 DPB2 101 2256 deoxyribonucleotide metabolism 1.21412e-05 YDL010W RNR1 RNR3 RNR2 CDC21 5 11 DNA repair 9.4436e-05 RDH54 DUN1 CDC9 RAD51 RAD54 RNR3 POL32 RAD27 MLP1 RAD5 RAD53 11 88 transcriptional control 0.00013054 HTB2 HTA2 HCM1 BDF2 ASF2 SOK1 HTB1 HTA1 DOT6 SWI4 RTT107 XBP1 ASF1 ABF1 YLR278C BDF1 SPT21 HHF2 HHT2 PHO23 SAS5 SNF2 HST2 MOT1 24 334 cell cycle 0.000181556 RDH54 KCC4 MCD1 CDC7 PCL2 PDS1 GIN4 RAD51 SWI4 RAD54 CLB6 SPO16 IRR1 SWE1 CDC6 SPC42 HSL1 ABF1 CDC45 CDC46 PDS5 CHS1 PCL1 SAS5 CIN1 NAN1 RAD53 BBP1 CLB5 29 451 cell differentiation 0.000949435 RFA1 ACH1 BOI1 GIC2 GIN4 GPA2 RAD51 SPO16 AXL2 CAP1 HSL1 SPA2 EXG1 SPH1 BDF1 CHS1 BNI4 SLA2 UFE1 SNF2 SPS4 SUR1 BBP1 OPY2 24 382 fungal cell differentiation 0.000949435 RFA1 ACH1 BOI1 GIC2 GIN4 GPA2 RAD51 SPO16 AXL2 CAP1 HSL1 SPA2 EXG1 SPH1 BDF1 CHS1 BNI4 SLA2 UFE1 SNF2 SPS4 SUR1 BBP1 OPY2 24 382 meiosis 0.00161426 RDH54 CDC7 RAD51 RAD54 CLB6 SPO16 ABF1 PDS5 BBP1 CLB5 10 104 mitotic cell cycle and cell cycle control 0.00166612 KCC4 MCD1 CDC7 PCL2 PDS1 GIN4 SWI4 CLB6 IRR1 SWE1 CDC6 SPC42 HSL1 CDC45 CDC46 PCL1 SAS5 CIN1 NAN1 RAD53 BBP1 CLB5 22 352 CELL FATE 0.00201161 RFA1 ACH1 BOI1 GIC2 GIN4 GPA2 RAD51 SPO16 AXL2 CAP1 LAC1 HSL1 SPA2 EXG1 SPH1 BDF1 CHS1 BNI4 SLA2 UFE1 SNF2 SPS4 SUR1 BBP1 OPY2 25 427 mRNA synthesis 0.0021825 HTB2 HTA2 HCM1 BDF2 ASF2 SOK1 HTB1 HTA1 DOT6 SWI4 RTT107 XBP1 ASF1 ABF1 YLR278C BDF1 SPT21 HHF2 HHT2 PHO23 SAS5 SNF2 HST2 MOT1 24 406 budding, cell polarity and filament formation 0.00280139 BOI1 GIC2 GIN4 GPA2 AXL2 CAP1 HSL1 SPA2 SPH1 BNI4 SLA2 SUR1 BBP1 13 170 MIPS Phenotypes Category p-value In Category from Cluster k f Nucleic acid metabolism defects 5.1269e-12 RDH54 POL30 MCD1 CDC7 RAD59 DUN1 MSH6 RAD51 RAD54 ASF1 RFA3 CDC6 POL32 ABF1 RAD27 MLP1 RAD5 CDC45 CDC46 BDF1 SPT21 HHF2 HHT2 PMS1 RFA2 TOP1 MOT1 RAD53 RLF2 CTF4 30 218 DNA repair mutants 1.95831e-10 RDH54 POL30 MCD1 CDC7 DUN1 MSH6 RAD51 RAD54 ASF1 RFA3 RAD27 MLP1 RAD5 BDF1 RFA2 RAD53 RLF2 17 78 Cell cycle defects 3.73034e-10 POL12 POL30 MCD1 CDC7 CDC9 PDS1 HTB1 HTA1 GIN4 RNR1 RAD51 SWI4 FAB1 CLB6 RNR2 CDC6 SPC42 PRI2 RAD27 CDC45 CDC46 BDF1 POL1 TOP1 NUP1 CIN1 RAD53 BBP1 CLB5 CTF4 DPB2 31 274 other DNA repair mutants 2.91826e-08 POL30 MCD1 CDC7 DUN1 MSH6 RAD51 RAD54 RFA3 RAD5 RFA2 10 32 other cell cycle defects 2.00859e-06 CDC9 PDS1 HTB1 HTA1 GIN4 RNR1 RAD51 SWI4 FAB1 CLB6 RNR2 SPC42 CDC45 BDF1 POL1 NUP1 CIN1 RAD53 BBP1 CLB5 CTF4 21 207 UV light sensitivity 3.97481e-06 POL30 MCD1 DUN1 ASF1 RAD27 MLP1 RAD5 RAD53 RLF2 9 41 Alkylating agents sensitivity 6.29704e-06 RDH54 POL30 DUN1 RAD54 ASF1 RAD27 BDF1 RAD53 8 33 DNA replication mutants 3.2035e-05 RFA3 CDC6 POL32 RAD27 CDC45 RFA2 TOP1 7 30 other cell morphology mutants 6.57158e-05 HTB2 HTA2 SUR2 IRR1 CAP1 FKS1 BDF1 SUR1 CTF4 9 57 Recombination mutants 0.000303125 RDH54 RAD59 RAD54 RAD27 CDC46 PMS1 TOP1 CTF4 8 55 Mating and sporulation defects 0.0015587 RFA1 ACH1 RDH54 HTB1 HTA1 RAD51 VRG4 CLB6 PRI2 SPA2 SPH1 CHS1 UFE1 MOT1 CLB5 15 199 Cell morphology and organelle mutants 0.00246108 HTB2 HTA2 YBR070C MCD1 USO1 SUR2 GIN4 GPA2 SWI4 FAB1 IRR1 AXL2 SLN1 CDC6 CAP1 SPA2 FKS1 BDF1 CHS1 BNI4 SLA2 TLG2 UFE1 NUP1 KTR1 CIN1 SUR1 BBP1 CTF4 29 530 Sporulation efficiency 0.00281053 RFA1 ACH1 RDH54 HTB1 HTA1 RAD51 VRG4 CLB6 CHS1 CLB5 10 112 MIPS Subcellular Localization Category p-value In Category from Cluster k f nucleus 1.13973e-07 RFA1 SEN34 HTB2 HTA2 POL12 POL30 HCM1 MCD1 CDC7 RAD59 DUN1 CDC9 SOK1 MSH6 PDS1 HTB1 HTA1 DOT6 PUP3 RAD51 SWI4 RAD54 RFA3 CDC6 PRI2 HSL1 ABF1 RAD27 MLP1 RAD5 CDC45 CDC46 BDF1 YOX1 SPT21 HHF2 HHT2 PMS1 POL1 TOF1 POP3 RFA2 TOP1 CDC21 NUP1 SAS5 SNF2 MOT1 NAN1 HHO1 RAD53 RLF2 CTF4 DPB2 54 836 cytoskeleton 0.000994055 KCC4 GLK1 GIN4 CAP1 SPC42 HSL1 SPA2 BNI4 SLA2 CIN1 BBP1 11 115 MIPS Protein Complexes Category p-value In Category from Cluster k f Replication complexes 7.72493e-13 RFA1 POL12 POL30 CDC7 CDC9 RFA3 CDC6 POL32 PRI2 RAD27 CDC45 CDC46 POL1 RFA2 TOP1 DPB2 16 49 Replication fork complexes 3.95786e-11 RFA1 POL12 POL30 CDC9 RFA3 POL32 PRI2 RAD27 POL1 RFA2 TOP1 DPB2 12 30 Nucleosomal protein complex 2.52734e-08 HTB2 HTA2 HTB1 HTA1 HHF2 HHT2 6 8 Replication factor A complex 3.1551e-05 RFA1 RFA3 RFA2 3 3 DNA polymerase alpha (I) - primase complex 0.000123242 POL12 PRI2 POL1 3 4 Ribonucleoside-diphosphate reductase 0.000123242 RNR1 RNR3 RNR2 3 4 Replication complex 0.00262786 POL32 CDC45 CDC46 DPB2 4 19 MIPS Protein Classes Category p-value In Category from Cluster k f Histones 8.6886e-09 HTB2 HTA2 HTB1 HTA1 HHF2 HHT2 HHO1 7 11 associated subunits 1.59148e-06 POL32 PRI2 POL1 CTF4 DPB2 5 8 H2 4.81319e-06 HTB2 HTA2 HTB1 HTA1 4 5 DNA-directed DNA polymerases 2.02782e-05 POL32 PRI2 POL1 CTF4 DPB2 5 12 GIN4 family 3.1551e-05 KCC4 GIN4 HSL1 3 3 DNA-dependent ATPases 3.21052e-05 RAD54 RAD5 CDC46 SNF2 MOT1 5 13 CaMK group 0.00132964 KCC4 DUN1 GIN4 HSL1 4 16 Cyclins 0.00460355 PCL2 CLB6 PCL1 CLB5 4 22 GO Molecular Function Category p-value In Category from Cluster k f DNA binding [GO:0003677] 4.00744e-06 RFA1 HTB2 HTA2 RDH54 KCC4 HCM1 RAD59 MSH6 HTB1 HTA1 RAD51 SWI4 RAD54 XBP1 RFA3 CDC6 ABF1 RAD27 RAD5 CDC45 CDC46 BDF1 YOX1 HHF2 HHT2 PMS1 RFA2 SNF2 HHO1 CTF4 30 388 transferase, transferring phosphorus-containing groups [GO:0016772] 1.70945e-05 POL12 POL30 KCC4 GLK1 CDC7 DUN1 PCL2 GIN4 FAB1 CLB6 SLN1 SWE1 POL32 PRI2 HSL1 PRR1 POL1 PCL1 PFK27 RAD53 THI21 CLB5 DPB2 23 275 DNA-directed DNA polymerase [GO:0003887] 4.63585e-05 POL12 POL30 POL32 PRI2 POL1 DPB2 6 22 oxidoreductase, acting on CH2 groups, disulfide as acceptor [GO:0016728] 0.000123242 RNR1 RNR3 RNR2 3 4 alpha DNA polymerase [GO:0003889] 0.000123242 POL12 PRI2 POL1 3 4 oxidoreductase, acting on CH2 groups [GO:0016725] 0.000123242 RNR1 RNR3 RNR2 3 4 ribonucleoside-diphosphate reductase [GO:0004748] 0.000123242 RNR1 RNR3 RNR2 3 4 phosphotransferase, alcohol group as acceptor [GO:0016773] 0.000151926 KCC4 GLK1 CDC7 DUN1 PCL2 GIN4 FAB1 CLB6 SLN1 SWE1 HSL1 PRR1 PCL1 PFK27 RAD53 CLB5 16 178 kinase [GO:0016301] 0.000155618 KCC4 GLK1 CDC7 DUN1 PCL2 GIN4 FAB1 CLB6 SLN1 SWE1 HSL1 PRR1 PCL1 PFK27 RAD53 THI21 CLB5 17 197 transferase [GO:0016740] 0.000198328 POL12 POL30 KCC4 GLK1 CDC7 DUN1 PCL2 HPT1 GIN4 FAB1 CLB6 SLN1 POT1 SWE1 POL32 PRI2 HSL1 PRR1 FKS1 TAL1 FKS3 POL1 CHS1 PCL1 PFK27 CDC21 KTR1 SAS5 RAD53 THI21 CLB5 DPB2 32 522 protein kinase [GO:0004672] 0.000242391 KCC4 CDC7 DUN1 PCL2 GIN4 CLB6 SLN1 SWE1 HSL1 PRR1 PCL1 RAD53 CLB5 13 131 osmosensor [GO:0005034] 0.00100339 SHO1 SLN1 2 2 DNA supercoiling [GO:0009387] 0.00100339 RDH54 RAD54 2 2 nucleic acid binding [GO:0003676] 0.00134856 RFA1 SEN34 HTB2 HTA2 RDH54 KCC4 HCM1 RAD59 MSH6 HTB1 HTA1 RAD51 SWI4 RAD54 XBP1 RFA3 CDC6 ABF1 RAD27 RAD5 CDC45 CDC46 NAM2 BDF1 YOX1 HHF2 HHT2 PMS1 SUI1 POP3 RFA2 EXO1 SNF2 NAN1 HHO1 DSS4 CTF4 37 707 enzyme [GO:0003824] 0.00145233 SEN34 ACH1 POL12 RDH54 POL30 KCC4 GLK1 PDI1 CDC7 DUN1 PCL2 CDC9 TRP1 TGL2 MSH6 SUR2 HPT1 GIN4 SPF1 YEL047C PMI40 GPA2 RNR1 PUP3 FAB1 RAD54 CLB6 ADE3 SCW4 RNR3 SLN1 POT1 RNR2 SWE1 CDC6 POL32 PRI2 HSL1 RAD27 PRR1 RAD5 CDC46 EXG1 FKS1 TAL1 NAM2 SCW10 FKS3 PMS1 POL1 LEU4 CHS1 POP3 PCL1 TOP1 PLB3 PFK27 GRE2 EXO1 CDC21 KTR1 SAS5 PRO2 HST2 MOT1 RRD2 RAD53 THI21 CLB5 DPB2 70 1604 double-stranded DNA binding [GO:0003690] 0.0015696 RFA1 RAD59 RAD51 3 8 1,3-beta-glucan synthase [GO:0003843] 0.00294706 FKS1 FKS3 2 3 single-stranded DNA binding [GO:0003697] 0.00430951 RFA1 RAD59 RAD51 3 11 GO Biological Process Category p-value In Category from Cluster k f DNA replication [GO:0006260] 1e-14 RFA1 POL12 POL30 CDC7 CDC9 MSH6 RNR1 CLB6 RNR3 RNR2 RFA3 CDC6 POL32 PRI2 ABF1 RAD27 CDC45 CDC46 PMS1 POL1 TOF1 RFA2 TOP1 EXO1 CDC21 CLB5 CTF4 DPB2 28 91 S phase of mitotic cell cycle [GO:0000084] 1e-14 RFA1 POL12 POL30 CDC7 CDC9 MSH6 RNR1 CLB6 RNR3 RNR2 RFA3 CDC6 POL32 PRI2 ABF1 RAD27 CDC45 CDC46 PMS1 POL1 TOF1 RFA2 TOP1 EXO1 CDC21 CLB5 CTF4 DPB2 28 93 DNA dependent DNA replication [GO:0006261] 1e-14 RFA1 POL12 POL30 CDC7 CDC9 MSH6 RFA3 CDC6 POL32 PRI2 CDC45 CDC46 PMS1 POL1 TOF1 RFA2 TOP1 EXO1 CDC21 CTF4 DPB2 21 73 DNA replication and chromosome cycle [GO:0000067] 1e-14 RFA1 POL12 POL30 MCD1 CDC7 CDC9 MSH6 RNR1 CLB6 IRR1 RNR3 RNR2 RFA3 CDC6 POL32 SPC42 PRI2 ABF1 RAD27 CDC45 CDC46 PDS5 PMS1 POL1 TOF1 RFA2 TOP1 EXO1 CDC21 CLB5 CTF4 DPB2 32 201 DNA metabolism [GO:0006259] 1e-14 RFA1 HTB2 HTA2 POL12 RDH54 POL30 MRC1 CDC7 RAD59 CDC9 ASF2 MSH6 HTB1 HTA1 RNR1 DOT6 RAD51 RAD54 CLB6 RTT107 RNR3 RNR2 RFA3 CDC6 POL32 PRI2 ABF1 RAD27 RAD5 CDC45 CDC46 RHC18 HHF2 HHT2 PMS1 PHO23 POL1 TOF1 RFA2 TOP1 ESC8 EXO1 CDC21 SAS5 SNF2 SPS4 HST2 RAD53 CLB5 CTF4 DPB2 51 349 cell cycle [GO:0007049] 8.34888e-14 RFA1 POL12 RDH54 POL30 KCC4 MRC1 HCM1 MCD1 CDC7 DUN1 PCL2 CDC9 MSH6 PDS1 GIN4 RNR1 RAD51 SWI4 CLB6 IRR1 RNR3 RNR2 RFA3 SWE1 CDC6 POL32 SPC42 PRI2 HSL1 ABF1 RAD27 SPA2 CDC45 CDC46 PDS5 PMS1 POL1 CHS1 BNI4 TOF1 PCL1 RFA2 TOP1 EXO1 CDC21 SPS4 OPY2 CLB5 CTF4 DPB2 50 504 mitotic cell cycle [GO:0000278] 1.41465e-12 RFA1 POL12 POL30 MCD1 CDC7 CDC9 MSH6 PDS1 RNR1 CLB6 IRR1 RNR3 RNR2 RFA3 SWE1 CDC6 POL32 PRI2 HSL1 ABF1 RAD27 CDC45 CDC46 PDS5 PMS1 POL1 TOF1 RFA2 TOP1 EXO1 CDC21 CLB5 CTF4 DPB2 34 266 DNA repair [GO:0006281] 5.52965e-11 RFA1 RDH54 POL30 RAD59 CDC9 MSH6 RAD51 RAD54 RFA3 POL32 PRI2 RAD27 RAD5 RHC18 PMS1 POL1 RFA2 EXO1 RAD53 CTF4 DPB2 21 116 DNA strand elongation [GO:0006271] 3.36602e-10 RFA1 POL12 POL30 CDC9 RFA3 POL32 PRI2 POL1 RFA2 TOP1 DPB2 11 28 DNA replication, priming [GO:0006269] 6.48974e-09 RFA1 POL12 RFA3 PRI2 POL1 RFA2 6 7 double-strand break repair [GO:0006302] 1.43678e-08 RFA1 RDH54 RAD59 RAD51 RAD54 RFA3 PRI2 RAD27 POL1 RFA2 10 30 nucleobase, nucleoside, nucleotide and nucleic acid metabolism [GO:0006139] 1.49903e-08 RFA1 SEN34 HTB2 HTA2 POL12 RDH54 POL30 MRC1 HCM1 CDC7 RAD59 CDC9 ASF2 MSH6 HTB1 HTA1 HPT1 PMI40 RNR1 DOT6 RAD51 RAD54 CLB6 ADE3 RTT107 RNR3 SLN1 RNR2 RFA3 CDC6 POL32 PRI2 ABF1 RAD27 RAD5 CDC45 CDC46 NAM2 RHC18 SPT21 HHF2 HHT2 PMS1 PHO23 POL1 TOF1 POP3 RFA2 TOP1 ESC8 EXO1 CDC21 NUP1 SAS5 SRL1 SNF2 SPS4 HST2 MOT1 NAN1 HHO1 RAD53 CLB5 CTF4 DPB2 65 1046 double-strand break repair via synthesis-dependent strand annealing [GO:0045003] 1.79676e-07 RDH54 RAD51 RAD54 PRI2 RAD27 POL1 6 10 lagging strand elongation [GO:0006273] 2.62965e-07 POL12 POL30 CDC9 POL32 PRI2 POL1 DPB2 7 16 double-strand break repair via homologous recombination [GO:0000724] 2.62965e-07 RDH54 RAD59 RAD51 RAD54 PRI2 RAD27 POL1 7 16 recombinational repair [GO:0000725] 2.62965e-07 RDH54 RAD59 RAD51 RAD54 PRI2 RAD27 POL1 7 16 DNA recombination [GO:0006310] 5.92522e-07 RFA1 RDH54 RAD59 CDC9 RAD51 RAD54 RTT107 RFA3 PRI2 RAD27 POL1 RFA2 TOP1 13 76 mitotic recombination [GO:0006312] 6.10626e-07 RDH54 RAD59 RAD51 RAD54 PRI2 RAD27 POL1 TOP1 8 25 double-strand break repair via single-strand annealing [GO:0045002] 7.4943e-07 RAD59 RAD51 RAD54 PRI2 RAD27 POL1 6 12 chromosome organization and biogenesis (sensu Eukarya) [GO:0007001] 7.74062e-07 HTB2 HTA2 MRC1 RAD59 ASF2 HTB1 HTA1 DOT6 RAD51 RAD54 ABF1 HHF2 HHT2 PHO23 TOP1 ESC8 SAS5 SNF2 HST2 19 163 nuclear organization and biogenesis [GO:0006997] 3.82327e-06 HTB2 HTA2 MRC1 RAD59 ASF2 HTB1 HTA1 DOT6 RAD51 RAD54 ABF1 HHF2 HHT2 PHO23 TOP1 ESC8 NUP1 SAS5 SNF2 HST2 20 198 chromatin assembly/disassembly [GO:0006333] 4.66152e-06 HTB2 HTA2 HTB1 HTA1 HHF2 HHT2 TOP1 7 23 post-replication repair [GO:0006301] 6.79743e-06 RFA1 POL30 RFA3 POL32 RFA2 5 10 DNA packaging [GO:0006323] 8.52413e-06 HTB2 HTA2 MRC1 ASF2 HTB1 HTA1 DOT6 ABF1 HHF2 HHT2 PHO23 TOP1 ESC8 SAS5 SNF2 HST2 16 141 establishment and/or maintenance of chromatin architecture [GO:0006325] 8.52413e-06 HTB2 HTA2 MRC1 ASF2 HTB1 HTA1 DOT6 ABF1 HHF2 HHT2 PHO23 TOP1 ESC8 SAS5 SNF2 HST2 16 141 non-recombinational repair [GO:0000726] 2.53982e-05 RAD59 RAD51 RAD54 PRI2 RAD27 POL1 6 20 mismatch repair [GO:0006298] 2.53982e-05 POL30 MSH6 POL32 PMS1 EXO1 DPB2 6 20 maintenance of fidelity during DNA dependent DNA replication [GO:0045005] 2.53982e-05 POL30 MSH6 POL32 PMS1 EXO1 DPB2 6 20 septin checkpoint [GO:0000135] 3.1551e-05 KCC4 GIN4 HSL1 3 3 heteroduplex formation [GO:0030491] 3.1551e-05 RDH54 RAD51 RAD54 3 3 nucleotide-excision repair [GO:0006289] 3.2035e-05 RFA1 POL30 CDC9 RFA3 POL32 RFA2 DPB2 7 30 cell growth and/or maintenance [GO:0008151] 4.18504e-05 RFA1 SEN34 HTB2 HTA2 ACH1 POL12 BOI1 RDH54 POL30 KCC4 GLK1 PDI1 MRC1 HCM1 MCD1 CDC7 ERP3 USO1 RAD59 RPS29B DUN1 PCL2 ENT1 CDC9 ASF2 TRP1 TGL2 MSH6 PDS1 YDR115W HTB1 HTA1 SUR2 GIC2 HPT1 GIN4 SMT3 SPF1 YEL047C PMI40 GPA2 RNR1 DOT6 PUP3 RAD51 SWI4 SHO1 FAB1 RAD54 VRG4 CLB6 ADE3 SCW4 ERP5 SPO16 RTT107 MNL1 IRR1 RNR3 XBP1 AXL2 SLN1 POT1 RNR2 ASF1 RFA3 SWE1 CDC6 ELO1 POL32 RSM7 CAP1 SPC42 PRI2 HSL1 ABF1 RAD27 MLP1 SPA2 RAD5 CDC45 THI7 PIG1 CDC46 EXG1 SPH1 FKS1 TAL1 NAM2 RHC18 BDF1 COG8 PDS5 SPT21 SCW10 HHF2 HHT2 PMS1 PHO23 POL1 LEU4 CHS1 BNI4 SLA2 SUI1 TOF1 POP3 PCL1 RPS19B RFA2 TOP1 PLB3 ESC8 TLG2 RPS15 PFK27 EXO1 CDC21 UFE1 NUP1 KTR1 SAS5 SRL1 SNF2 SPS4 PRO2 SNC2 CIN1 HST2 SUR1 RPS9A MOT1 NAN1 HHO1 RRD2 RAD53 BBP1 THI21 DSS4 OPY2 CLB5 CTF4 DPB2 143 3657 DNA replication initiation [GO:0006270] 4.63585e-05 POL12 CDC7 PRI2 CDC45 CDC46 POL1 6 22 metabolism [GO:0008152] 4.73248e-05 RFA1 SEN34 HTB2 HTA2 ACH1 POL12 RDH54 POL30 KCC4 GLK1 PDI1 MRC1 HCM1 CDC7 ERP3 USO1 RAD59 RPS29B DUN1 CDC9 ASF2 TRP1 TGL2 MSH6 PDS1 YDR115W HTB1 HTA1 SUR2 HPT1 GIN4 SMT3 SPF1 YEL047C PMI40 RNR1 DOT6 PUP3 RAD51 FAB1 RAD54 VRG4 CLB6 ADE3 ERP5 RTT107 MNL1 RNR3 SLN1 POT1 RNR2 RFA3 CDC6 ELO1 POL32 RSM7 PRI2 HSL1 ABF1 RAD27 MLP1 RAD5 CDC45 PIG1 CDC46 EXG1 FKS1 TAL1 NAM2 RHC18 COG8 SPT21 HHF2 HHT2 PMS1 PHO23 POL1 LEU4 SLA2 SUI1 TOF1 POP3 RPS19B RFA2 TOP1 PLB3 ESC8 TLG2 RPS15 PFK27 EXO1 CDC21 UFE1 NUP1 KTR1 SAS5 SRL1 SNF2 SPS4 PRO2 SNC2 HST2 SUR1 RPS9A MOT1 NAN1 HHO1 RAD53 THI21 DSS4 CLB5 CTF4 DPB2 113 2693 DNA repair synthesis [GO:0000731] 0.000123242 PRI2 RAD27 POL1 3 4 double-strand break repair via break-induced replication [GO:0000727] 0.000178265 RDH54 RAD59 RAD51 RAD54 4 10 DNA unwinding [GO:0006268] 0.000273193 RFA1 RFA3 CDC46 RFA2 4 11 mitotic sister chromatid cohesion [GO:0007064] 0.000300886 MCD1 IRR1 PDS5 3 5 cell cycle checkpoint [GO:0000075] 0.000514063 KCC4 MRC1 DUN1 GIN4 SWE1 HSL1 6 33 telomerase-independent telomere maintenance [GO:0000722] 0.000587692 RAD59 RAD51 RAD54 3 6 cell morphogenesis checkpoint [GO:0000078] 0.00100339 SWE1 HSL1 2 2 chromatin silencing [GO:0006342] 0.00116511 MRC1 ASF2 DOT6 ABF1 ESC8 SAS5 HST2 7 52 gene silencing [GO:0016458] 0.00146196 MRC1 ASF2 DOT6 ABF1 ESC8 SAS5 HST2 7 54 transcriptional gene silencing [GO:0016440] 0.00146196 MRC1 ASF2 DOT6 ABF1 ESC8 SAS5 HST2 7 54 regulation of cell cycle [GO:0000074] 0.00173587 KCC4 MRC1 DUN1 GIN4 CLB6 SWE1 HSL1 SPA2 OPY2 CLB5 10 105 Rho protein signal transduction [GO:0007266] 0.00212688 BOI1 GIC2 SPA2 SPH1 4 18 base-excision repair [GO:0006284] 0.00229957 POL30 CDC9 POL32 3 9 mitotic prophase [GO:0000088] 0.00229957 MCD1 PDS5 TOP1 3 9 mitotic chromosome condensation [GO:0007076] 0.00229957 MCD1 PDS5 TOP1 3 9 septin assembly and septum formation [GO:0000094] 0.00294706 KCC4 GIN4 2 3 non-covalent chromatin modification [GO:0016582] 0.00339171 MRC1 ASF2 DOT6 ABF1 ESC8 SAS5 SNF2 HST2 8 79 chromatin modeling [GO:0006338] 0.00339171 MRC1 ASF2 DOT6 ABF1 ESC8 SAS5 SNF2 HST2 8 79 axial budding [GO:0007120] 0.0038611 KCC4 GIC2 GIN4 AXL2 4 21 gene conversion at MAT locus [GO:0007534] 0.00430951 RDH54 RAD51 RAD54 3 11 GO Cellular Component Category p-value In Category from Cluster k f replication fork [GO:0005657] 3.61765e-09 RFA1 POL12 POL30 CDC9 RFA3 POL32 PRI2 CDC45 CDC46 POL1 RFA2 DPB2 12 42 nucleosome [GO:0005718] 2.02937e-08 HTB2 HTA2 HTB1 HTA1 HHF2 HHT2 HHO1 7 12 chromatin [GO:0005717] 1.8102e-07 HTB2 HTA2 HTB1 HTA1 ABF1 RAD5 HHF2 HHT2 SAS5 HHO1 10 38 chromosome [GO:0005694] 7.85087e-07 HTB2 HTA2 MCD1 HTB1 HTA1 RAD51 IRR1 ABF1 RAD5 PDS5 HHF2 HHT2 PMS1 SAS5 MOT1 HHO1 16 118 cell [GO:0005623] 7.40912e-06 RFA1 SEN34 HTB2 HTA2 ACH1 POL12 BOI1 YBR071W RDH54 POL30 KCC4 GLK1 YCL042W PDI1 HCM1 MCD1 CDC7 ERP3 USO1 RAD59 RPS29B BDF2 YDL072C PCL2 ENT1 CDC9 SOK1 TRP1 MSH6 PDS1 YDR115W HTB1 HTA1 SUR2 GIC2 GIN4 SMT3 SPF1 YEL047C RNR1 PUP3 RAD51 SWI4 SHO1 FAB1 RAD54 VRG4 ADE3 ERP5 MNL1 IRR1 XBP1 AXL2 SLN1 POT1 RNR2 ASF1 RFA3 SWE1 CDC6 ELO1 POL32 RSM7 CAP1 LAC1 SPC42 PRI2 HSL1 ABF1 RAD27 MLP1 SPA2 RAD5 CDC45 THI7 CDC46 SPH1 FKS1 TAL1 NAM2 RHC18 BDF1 COG8 PDS5 SCW10 HHF2 HHT2 PMS1 PHO23 POL1 LEU4 CHS1 BNI4 SLA2 SUI1 TOF1 POP3 PCL1 RPS19B RFA2 TOP1 PLB3 ESC8 TLG2 RPS15 PFK27 EXO1 CDC21 UFE1 NUP1 KTR1 SAS5 SNF2 PRO2 SNC2 CIN1 HST2 RPS9A MOT1 NAN1 HHO1 RAD53 BBP1 DSS4 RLF2 OPY2 CLB5 CTF4 DPB2 129 3106 DNA replication factor A complex [GO:0005662] 3.1551e-05 RFA1 RFA3 RFA2 3 3 intracellular [GO:0005622] 5.60809e-05 RFA1 SEN34 HTB2 HTA2 ACH1 POL12 YBR071W RDH54 POL30 GLK1 YCL042W PDI1 HCM1 MCD1 CDC7 RAD59 RPS29B BDF2 YDL072C PCL2 ENT1 CDC9 SOK1 TRP1 MSH6 PDS1 YDR115W HTB1 HTA1 SUR2 GIC2 SMT3 SPF1 YEL047C RNR1 PUP3 RAD51 SWI4 SHO1 FAB1 RAD54 VRG4 ADE3 MNL1 IRR1 XBP1 AXL2 SLN1 POT1 RNR2 ASF1 RFA3 SWE1 CDC6 POL32 RSM7 CAP1 LAC1 SPC42 PRI2 HSL1 ABF1 RAD27 MLP1 SPA2 RAD5 CDC45 THI7 CDC46 SPH1 FKS1 TAL1 NAM2 RHC18 BDF1 COG8 PDS5 SCW10 HHF2 HHT2 PMS1 PHO23 POL1 LEU4 CHS1 BNI4 SLA2 SUI1 POP3 PCL1 RPS19B RFA2 TOP1 PLB3 ESC8 TLG2 RPS15 PFK27 EXO1 CDC21 UFE1 NUP1 KTR1 SAS5 SNF2 PRO2 SNC2 CIN1 HST2 RPS9A MOT1 NAN1 HHO1 RAD53 BBP1 RLF2 OPY2 CLB5 CTF4 DPB2 120 2921 bud [GO:0005933] 7.08769e-05 BOI1 KCC4 GIC2 GIN4 AXL2 SWE1 HSL1 SPA2 SPH1 BNI4 10 71 bud neck [GO:0005935] 9.94446e-05 BOI1 KCC4 GIN4 AXL2 SWE1 HSL1 SPA2 SPH1 BNI4 9 60 site of polarized growth (sensu Fungi) [GO:0030483] 0.000101505 BOI1 KCC4 GIC2 GIN4 AXL2 SWE1 HSL1 SPA2 SPH1 BNI4 10 74 site of polarized growth [GO:0030427] 0.000101505 BOI1 KCC4 GIC2 GIN4 AXL2 SWE1 HSL1 SPA2 SPH1 BNI4 10 74 site of polarized growth (sensu Saccharomyces) [GO:0000134] 0.000101505 BOI1 KCC4 GIC2 GIN4 AXL2 SWE1 HSL1 SPA2 SPH1 BNI4 10 74 cell cortex [GO:0005938] 0.000104806 ENT1 GIC2 SMT3 AXL2 CAP1 HSL1 SPA2 SPH1 FKS1 BNI4 SLA2 11 89 nucleus [GO:0005634] 0.000297915 RFA1 SEN34 POL12 RDH54 POL30 HCM1 MCD1 CDC7 RAD59 BDF2 CDC9 SOK1 MSH6 PDS1 SMT3 RAD51 SWI4 RAD54 IRR1 XBP1 ASF1 RFA3 SWE1 CDC6 POL32 PRI2 RAD27 MLP1 CDC45 CDC46 RHC18 BDF1 PMS1 PHO23 POL1 POP3 RFA2 TOP1 ESC8 EXO1 CDC21 NUP1 SNF2 MOT1 NAN1 HHO1 RAD53 RLF2 CLB5 CTF4 DPB2 51 1007 alpha DNA polymerase\:primase complex [GO:0005658] 0.000587692 POL12 PRI2 POL1 3 6 pre-replicative complex [GO:0005656] 0.0015696 CDC6 CDC45 CDC46 3 8 nucleoplasm [GO:0005654] 0.00163963 RFA1 POL12 POL30 CDC7 CDC9 ASF1 RFA3 CDC6 POL32 PRI2 MLP1 CDC45 CDC46 POL1 RFA2 SNF2 RLF2 DPB2 18 263 SMART Domains Category p-value In Category from Cluster k f GIT 0.00100339 SPA2 SPH1 2 2 H2B 0.00100339 HTB2 HTB1 2 2 CYCLIN 0.00212688 PCL2 CLB6 PCL1 CLB5 4 18 BROMO 0.00229957 BDF2 BDF1 SNF2 3 9 H2A 0.00294706 HTA2 HTA1 2 3 PFam-A Domains Category p-value In Category from Cluster k f PF00125 (histone) 1.79676e-07 HTB2 HTA2 HTB1 HTA1 HHF2 HHT2 6 10 PF00176 (SNF2_N) 0.00013912 RDH54 RAD54 RAD5 SNF2 MOT1 5 17 PF00317 (ribonuc_red_lg) 0.00100339 RNR1 RNR3 2 2 PF03477 (ATP-cone) 0.00100339 RNR1 RNR3 2 2 PF02867 (ribonuc_red_lgC) 0.00100339 RNR1 RNR3 2 2 PF00134 (cyclin) 0.00132964 PCL2 CLB6 PCL1 CLB5 4 16 PF02364 (Glucan_synthase) 0.00294706 FKS1 FKS3 2 3 PF00439 (bromodomain) 0.0032087 BDF2 BDF1 SNF2 3 10 Yeast Two Hybrid - Uetz Category p-value In Category from Cluster k f Yeast Two Hybrid - Ito (core) Category p-value In Category from Cluster k f Yeast Two Hybrid - Ito (full) Category p-value In Category from Cluster k f YLR453C (RIF2) 0.00288721 RDH54 PCL2 RAD27 CCW12 YOX1 YNR009W TOP1 SUR1 8 77 Synthetic Genetic Array Analysis Category p-value In Category from Cluster k f YMR190C (SGS1) 6.40524e-06 RNR1 RTT107 ASF1 SWE1 POL32 RAD27 TOP1 7 24 MDS Proteomics Complexes Category p-value In Category from Cluster k f YPL153C (RAD53) 0.00013912 HTA2 DUN1 SWI4 ASF1 DCR1 5 17 YOL054W (PSH1) 0.000563004 HTB2 HTA2 HTB1 HTA1 4 13 Cellzome Complexes Category p-value In Category from Cluster k f YBL035C (POL12) 0.000178265 POL12 USO1 PRI2 POL1 4 10 YJL115W (ASF1) 0.000587692 RNR2 ASF1 RAD53 3 6 YDL070W (BDF2) 0.00100339 BDF2 BDF1 2 2 YBL002W (HTB2) 0.00212688 HTB2 TOP1 MOT1 DPB2 4 18 YDR097C (MSH6) 0.00320421 RFA1 MSH6 RFA3 RFA2 4 20 YNR052C (POP2) 0.0032087 POL12 PRI2 POL1 3 10 YAR007C (RFA1) 0.0032087 RFA1 MSH6 RFA2 3 10 Proteome Localization--Observed Category p-value In Category from Cluster k f Proteome Localization--Predicted+Observed Category p-value In Category from Cluster k f nuc 5.17231e-08 RFA1 SEN34 HTB2 HTA2 POL12 BOI1 YBR007C RDH54 POL30 KCC4 HCM1 MCD1 CDC7 RAD59 BDF2 DUN1 PCL2 CDC9 ASF2 SOK1 PDS1 YDR115W HTB1 HTA1 GIN4 SMT3 DOT6 RAD51 SWI4 RAD54 CLB6 RTT107 ASF1 RFA3 YJL181W CDC6 POL32 SPC42 PRI2 HSL1 ABF1 YKR077W MLP1 RAD5 YLR049C CDC45 CDC46 YLR278C SPH1 RHC18 BDF1 YOX1 SPT21 HHF2 HHT2 PMS1 PHO23 POL1 YNL181W POP3 PCL1 RFA2 TOP1 CDC21 UFE1 NUP1 SAS5 SNF2 YOR305W SPS4 MOT1 NAN1 HHO1 RAD53 BBP1 YPL267W RLF2 CTF4 DPB2 79 1435 Deletions Consortium (Essentiality, Morphology) Category p-value In Category from Cluster k f Morphology - Large 0.000488089 MRC1 RNR1 RAD51 RAD54 RTT107 MNL1 RNR3 XBP1 ASF1 YJR001W CAP1 RAD27 CIN1 CTF4 14 159 Morphology - Elongate 0.00209825 HCM1 DUN1 RNR1 RTT107 RNR3 XBP1 POT1 HSL1 RAD27 SPT21 SNF2 CTF4 12 145 Yeast Fitness Data Category p-value In Category from Cluster k f Published Complexes Category p-value In Category from Cluster k f