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GSE55662: Plasticity of transcriptional regulation under antibiotic stress
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Results for FNR
Z-value: 2.69
Transcription factors associated with FNR
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| fnr | 0.89 | 3.3e-03 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| focA-pflB Show fit | 14.35 |
formate channel FocA pyruvate formate-lyase (inactive) |
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| fnrS Show fit | 11.83 |
FnrS |
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| aspA Show fit | 10.19 |
aspartate ammonia-lyase |
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| dcuC Show fit | 9.33 |
dicarboxylate transporter DcuC |
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| rpsP-rimM-trmD-rplS Show fit | 8.92 |
50S ribosomal subunit protein L19 ribosome maturation protein tRNA m1G37 methyltransferase 30S ribosomal subunit protein S16 |
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| rpsJ-rplCDWB-rpsS-rplV-rpsC-rplP-rpmC-rpsQ Show fit | 8.33 |
30S ribosomal subunit protein S3 50S ribosomal subunit protein L22 50S ribosomal subunit protein L23 30S ribosomal subunit protein S10 50S ribosomal subunit protein L16 30S ribosomal subunit protein S19 30S ribosomal subunit protein S17 50S ribosomal subunit protein L29 50S ribosomal subunit protein L4 50S ribosomal subunit protein L2 50S ribosomal subunit protein L3 |
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| aspA-dcuA Show fit | 7.74 |
aspartate ammonia-lyase dicarboxylate transporter DcuA |
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| tpx Show fit | 7.67 |
lipid hydroperoxide peroxidase |
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| sucAB Show fit | 7.53 |
subunit of E1(0) component of 2-oxoglutarate dehydrogenase dihydrolipoyltranssuccinylase |
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| sucABCD Show fit | 7.11 |
subunit of E1(0) component of 2-oxoglutarate dehydrogenase succinyl-CoA synthetase, β subunit dihydrolipoyltranssuccinylase succinyl-CoA synthetase, α subunit |
Network of associatons between targets according to the STRING database.
First level regulatory network of FNR
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 3.1 | 46.9 | GO:0006099 | tricarboxylic acid cycle(GO:0006099) citrate metabolic process(GO:0006101) |
| 4.7 | 23.5 | GO:0006567 | threonine catabolic process(GO:0006567) |
| 2.3 | 21.0 | GO:0000027 | ribosomal large subunit assembly(GO:0000027) ribosomal large subunit biogenesis(GO:0042273) |
| 4.3 | 17.2 | GO:0015942 | formate metabolic process(GO:0015942) |
| 3.1 | 15.7 | GO:0030490 | maturation of SSU-rRNA(GO:0030490) |
| 3.0 | 11.9 | GO:0018249 | protein dehydration(GO:0018249) peptidyl-S-carbamoyl-L-cysteine dehydration(GO:0046892) |
| 3.5 | 7.0 | GO:0006103 | 2-oxoglutarate metabolic process(GO:0006103) |
| 2.3 | 6.9 | GO:0006113 | fermentation(GO:0006113) |
| 2.2 | 6.7 | GO:0046209 | nitric oxide metabolic process(GO:0046209) nitric oxide catabolic process(GO:0046210) |
| 2.9 | 5.9 | GO:0019541 | acetate metabolic process(GO:0006083) propionate metabolic process(GO:0019541) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 123.4 | GO:0044444 | cytoplasmic part(GO:0044444) |
| 2.6 | 36.7 | GO:0015934 | large ribosomal subunit(GO:0015934) cytosolic large ribosomal subunit(GO:0022625) |
| 6.7 | 20.2 | GO:0045252 | tricarboxylic acid cycle enzyme complex(GO:0045239) dihydrolipoyl dehydrogenase complex(GO:0045240) oxoglutarate dehydrogenase complex(GO:0045252) |
| 3.4 | 6.9 | GO:0045273 | respiratory chain complex II(GO:0045273) plasma membrane respiratory chain complex II(GO:0045274) |
| 2.4 | 4.7 | GO:0070469 | respiratory chain(GO:0070469) plasma membrane respiratory chain(GO:0070470) respiratory chain complex(GO:0098803) |
| 1.6 | 3.2 | GO:0031235 | intrinsic component of the cytoplasmic side of the plasma membrane(GO:0031235) |
| 1.1 | 3.2 | GO:0070069 | cytochrome complex(GO:0070069) |
| 0.3 | 3.0 | GO:0031234 | extrinsic component of cytoplasmic side of plasma membrane(GO:0031234) |
| 0.2 | 1.4 | GO:0071575 | integral component of external side of plasma membrane(GO:0071575) |
| 0.0 | 1.4 | GO:0005622 | intracellular(GO:0005622) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 3.5 | 28.4 | GO:0070180 | large ribosomal subunit rRNA binding(GO:0070180) |
| 5.9 | 23.5 | GO:0008861 | formate C-acetyltransferase activity(GO:0008861) |
| 6.7 | 20.2 | GO:0004149 | dihydrolipoyllysine-residue succinyltransferase activity(GO:0004149) oxoglutarate dehydrogenase (succinyl-transferring) activity(GO:0004591) oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor(GO:0016624) S-succinyltransferase activity(GO:0016751) |
| 4.9 | 19.8 | GO:0005469 | succinate:fumarate antiporter activity(GO:0005469) |
| 3.0 | 11.9 | GO:0070025 | carbon monoxide binding(GO:0070025) |
| 0.3 | 11.3 | GO:0016616 | oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor(GO:0016616) |
| 1.8 | 11.0 | GO:0030151 | molybdenum ion binding(GO:0030151) |
| 2.6 | 10.2 | GO:0004333 | fumarate hydratase activity(GO:0004333) |
| 2.0 | 10.2 | GO:0016841 | ammonia-lyase activity(GO:0016841) |
| 2.8 | 8.3 | GO:0045182 | translation repressor activity(GO:0030371) translation regulator activity(GO:0045182) |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.8 | 5.5 | REACTOME TCA CYCLE AND RESPIRATORY ELECTRON TRANSPORT | Genes involved in The citric acid (TCA) cycle and respiratory electron transport |