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Table 2 GO terms identified by GTA

From: A yeast phenomic model for the influence of Warburg metabolism on genetic buffering of doxorubicin

GO term name Media INT HLEG GTA HLEG gtaSD HLD GTA HLD gtaSD Genes REMc related p value
HIR complex Resp Enh 11.9 1.5 0.2 0.9 HIR1 HIR2 HPC2 HIR3 2-0.7-2 6.6E−06
histone monoubiquitination Resp Enh 11.4 7.0 0.1 1.2 RAD6 BRE1 NA NA
Ino80 complex Resp Enh 9.0 6.8 2.5 7.7 RVB1 IES6 ARP5 ARP8 ARP4 ARP7 IES5 IES3 NHP10 IES2 IES1 RVB2 IES4 TAF14 3-0.6.1-1 1.5E−06
histone H4 acetylation Resp Enh 8.0 4.8 − 0.8 2.1 ESA1 NGG1 ELP4 EAF3 HAT1 NA NA
mitochondrial respiratory chain complex III assembly Resp Enh 11.0 6.8 1.7 2.0 QCR7 CBP6 CBP4 BCS1 QCR9 FMP25 FMP36 CBP3 1-0-8 4.2E−02
mitochondrial respiratory chain supercomplex assembly Resp Enh 15.9 0.6 0.8 0.1 RCF1 COX13 1-0-8 7.0E−02
mitochondrial outer membrane translocase complex Resp Enh 9.1 6.4 0.7 3.1 TOM22 TOM5 TOM6 TOM70 TOM7 TOM40 NA NA
protein urmylation Resp Enh 7.4 2.6 1.1 0.9 ELP2 URM1 NCS2 UBA4 ELP6 URE2 2-0.2-1 1.1E−03
Elongator holoenzyme complex Resp Enh 8.9 3.6 0.0 0.9 TUP1 IKI3 ELP4 ELP2 ELP3 IKI1 ELP6 3-0.7.2-0 1.4E−04
NatC complex Resp Enh 14.9 1.7 − 0.4 0.6 MAK31 MAK10 MAK3 2-0.8-1 5.6E−03
DNA topological change Resp Enh 7.9 5.7 0.7 2.6 RFA2 TOP3 MUS81 RMI1 TOP1 SGS1 RFA1 RAD4 TOP2 2-0.8-0 2.6E−02
tRNA (m1A) methyltransferase complex Resp Enh 17.0 0.8 9.3 17.4 GCD10 GCD14 NA NA
MUB1-RAD6-UBR2 ubiquitin ligase complex Resp Enh 12.9 3.1 0.9 0.5 RAD6 MUB1 UBR2 NA NA
malonyl-CoA biosynthetic process Resp Enh 11.1 7.4 1.5 0.1 HFA1 ACC1 NA NA
pyridoxal 5'-phosphate salvage Resp Enh 11.1 8.7 1.5 5.3 PDX3 BUD16 BUD17 NA NA
maintenance of transcriptional fidelity during DNA-templated transcription elongation from RNA polymerase II promoter Resp Enh 11.1 7.5 − 0.4 4.2 RPB9 DST1 NA NA
RNA polymerase II transcription corepressor activity Resp Enh 11.0 7.6 2.2 1.7 SIN3 MED8 SRB7 NA NA
pyruvate dehydrogenase activity Resp Enh 10.6 6.4 2.8 0.9 PDA1 LPD1 PDB1 NA NA
eukaryotic translation initiation factor 2 complex Resp Enh 10.3 4.7 8.2 8.7 SUI2 GCD11 NA NA
L-aspartate:2-oxoglutarate aminotransferase activity Resp Sup − 3.9 0.5 − 0.9 0.8 AAT2 AAT1 2-0.4-3 5.9E−04
nuclear pore outer ring Resp Sup − 6.3 3.7 1.4 7.6 NUP145 SEH1 NUP84 NUP120 NUP133 3-0.4.1-0 9.7E−02
positive regulation of fatty acid beta-oxidation Resp Sup − 2.6 0.5 − 1.5 0.2 OAF1 ADR1 PIP2 2-0.3-1 2.1E−02
EKC/KEOPS complex Resp Sup − 7.9 4.6 − 1.8 1.1 KAE1 CGI121 GON7 BUD32 NA NA
spermine biosynthetic process Resp Sup − 2.6 0.3 − 0.3 0.7 SPE4 SPE2 NA NA
Dom34-Hbs1 complex Glyc Enh 0.3 2.1 2.7 0.3 HBS1 DOM34 NA NA
Ubp3-Bre5 deubiquitination complex Glyc Enh − 1.1 3.2 8.8 2.2 BRE5 UBP3 NA NA
Cul4-RING E3 ubiquitin ligase complex Glyc Enh 1.8 4.1 4.6 2.3 HRT1 PRP46 SOF1 NA NA
dTTP biosynthetic process Glyc Enh − 1.3 3.2 7.0 0.6 CDC21 CDC8 NA NA
GDP-mannose transport Glyc Enh 1.5 1.9 9.5 5.6 VRG4 HVG1 NA NA
7-methylguanosine cap hypermethylation Glyc Sup − 2.2 1.5 − 3.0 0.9 SWM2 TGS1 2-0.4-0 5.6E−03
meiotic chromosome condensation Glyc Sup − 0.8 0.9 − 2.9 0.9 SMC2 YCG1 SMC4 YCS4 2-0.4-2 3.4E−03
histone deubiquitination Glyc Sup 1.8 1.9 − 3.4 1.1 SEM1 UBP8 SGF73 SGF11 NA NA
HDA1 complex Both Enh 8.9 0.3 4.0 1.1 HDA2 HDA1 HDA3 NA NA
CTDK-1 complex Both Enh 15.6 0.7 3.8 0.9 CTK2 CTK3 CTK1 1-0-8 5.3E−02
Cul8-RING ubiquitin ligase complex Both Enh 9.1 4.5 6.1 1.1 MMS22 MMS1 RTT101 HRT1 RTT107 1-0-2 1.0E−01
Lst4-Lst7 complex Both Enh 9.9 1.4 3.9 0.3 LST7 LST4 2-0.2-1 3.1E−02
MCM complex Both Enh 4.2 1.4 4.9 2.6 MCM7 MCM6 MCM5 MCM2 MCM3 NA NA
histone H3-K56 acetylation Both Enh 10.3 7.0 8.6 4.3 RTT109 SPT10 NA NA
fatty acid elongase activity Both Sup − 12.2 2.4 − 7.0 1.1 SUR4 FEN1 2-0.4-1 2.9E−02
GARP complex Both Sup − 6.8 0.9 − 3.5 0.8 VPS53 VPS54 VPS52 VPS51 3-0.4.1-0 6.9E−07
nuclear cap binding complex Both Sup − 4.7 0.5 − 3.4 0.5 STO1 CBC2 3-0.4.1-0 9.9E−03
Rvs161p-Rvs167p complex Both Sup − 9.0 0.4 − 3.5 0.2 RVS167 RVS161 3-0.4.1-0 9.9E−03
  1. The table headers are defined as follows: “gtaSD” refers to the standard deviation of GTA, “REMc related” refers to an REMc cluster ID if GTA-identified term was also found by REMc/GTF, and “p value” reports results from REMc/GTF. See Table 1 for other header definitions