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GSE55662: Plasticity of transcriptional regulation under antibiotic stress
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Results for Sigma24
Z-value: 1.03
Transcription factors associated with Sigma24
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| rpoE | 0.77 | 2.7e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| bamD Show fit | 3.37 |
Outer Membrane Protein Assembly Complex - BamD subunit |
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| micL Show fit | 3.27 |
MicL-S small regulatory RNA |
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| fusA-tufA Show fit | 2.86 |
elongation factor Tu elongation factor G |
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| lpxD Show fit | 2.55 |
UDP-3-O-(R-3-hydroxymyristoyl)-glucosamine N-acyltransferase |
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| cyaR Show fit | 2.21 |
CyaR |
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| bamA Show fit | 2.21 |
Outer Membrane Protein Assembly Complex - BamA subunit |
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| hcp-hcr Show fit | 2.17 |
NADH oxidoreductase hybrid-cluster protein |
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| bamE Show fit | 2.00 |
Outer Membrane Protein Assembly Complex - BamE subunit |
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| ahpF Show fit | 1.83 |
alkyl hydroperoxide reductase, AhpF component |
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| ybaB-recR Show fit | 1.82 |
conserved DNA-binding protein recombination and repair |
Network of associatons between targets according to the STRING database.
First level regulatory network of Sigma24
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.5 | 10.5 | GO:0051205 | protein insertion into membrane(GO:0051205) |
| 0.9 | 4.6 | GO:0071709 | cell envelope organization(GO:0043163) Gram-negative-bacterium-type cell outer membrane assembly(GO:0043165) membrane biogenesis(GO:0044091) membrane assembly(GO:0071709) |
| 0.5 | 2.7 | GO:0006515 | misfolded or incompletely synthesized protein catabolic process(GO:0006515) |
| 0.7 | 2.6 | GO:0015920 | lipopolysaccharide transport(GO:0015920) |
| 0.7 | 2.2 | GO:0046209 | nitric oxide metabolic process(GO:0046209) nitric oxide catabolic process(GO:0046210) |
| 0.2 | 2.2 | GO:0046493 | lipid A biosynthetic process(GO:0009245) lipid A metabolic process(GO:0046493) |
| 0.4 | 1.8 | GO:0071897 | DNA synthesis involved in DNA repair(GO:0000731) DNA biosynthetic process(GO:0071897) |
| 0.4 | 1.6 | GO:0006415 | translational termination(GO:0006415) cellular protein complex disassembly(GO:0043624) |
| 0.1 | 1.0 | GO:0046352 | disaccharide catabolic process(GO:0046352) |
| 0.0 | 0.8 | GO:0009408 | response to heat(GO:0009408) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 11.4 | GO:0005829 | cytosol(GO:0005829) |
| 1.6 | 10.9 | GO:1990063 | Bam protein complex(GO:1990063) |
| 0.1 | 10.0 | GO:0030288 | outer membrane-bounded periplasmic space(GO:0030288) |
| 0.1 | 1.3 | GO:0098533 | ATP-binding cassette (ABC) transporter complex(GO:0043190) ATPase dependent transmembrane transport complex(GO:0098533) ATPase complex(GO:1904949) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 5.0 | GO:0005515 | protein binding(GO:0005515) |
| 0.4 | 3.6 | GO:0016684 | peroxidase activity(GO:0004601) oxidoreductase activity, acting on peroxide as acceptor(GO:0016684) |
| 0.8 | 3.1 | GO:0050570 | 4-hydroxythreonine-4-phosphate dehydrogenase activity(GO:0050570) |
| 0.4 | 2.7 | GO:0004252 | serine-type endopeptidase activity(GO:0004252) |
| 0.7 | 2.6 | GO:0032403 | lipopolysaccharide transmembrane transporter activity(GO:0015221) lipopolysaccharide-transporting ATPase activity(GO:0015437) protein complex binding(GO:0032403) |
| 0.3 | 2.5 | GO:0016410 | N-acyltransferase activity(GO:0016410) |
| 0.7 | 2.0 | GO:0008693 | 3-hydroxydecanoyl-[acyl-carrier-protein] dehydratase activity(GO:0008693) 3-hydroxyacyl-[acyl-carrier-protein] dehydratase activity(GO:0019171) 3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity(GO:0047451) |
| 0.6 | 1.9 | GO:0045152 | antisigma factor binding(GO:0045152) |
| 0.6 | 1.8 | GO:0070402 | NADPH binding(GO:0070402) |
| 0.0 | 1.8 | GO:0003677 | DNA binding(GO:0003677) |