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 |