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GSE55662: Plasticity of transcriptional regulation under antibiotic stress
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Results for Sigma38
Z-value: 0.91
Transcription factors associated with Sigma38
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| rpoS | -0.27 | 5.2e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| talA-tktB Show fit | 1.95 |
transaldolase A transketolase II |
||
| otsBA Show fit | 1.01 |
trehalose-6-phosphate synthase trehalose-6-phosphate phosphatase |
||
| tktB Show fit | 0.97 |
transketolase II |
||
| ycgZ-ymgA-ariR-ymgC Show fit | 0.93 |
regulator of acid resistance, influenced by indole protein involved in biofilm formation protein involved in biofilm formation predicted protein |
||
| ybiI Show fit | 0.93 |
conserved protein |
||
| gadBC Show fit | 0.92 |
glutamate decarboxylase B subunit glutamic acid:4-aminobutyrate antiporter |
||
| yhjG Show fit | 0.88 |
predicted outer membrane biogenesis protein |
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| osmF-yehYXW Show fit | 0.87 |
glycine betaine ABC transporter - periplasmic binding protein glycine betaine ABC transporter - putative membrane subunit glycine betaine ABC transporter - putative ATP binding subunit glycine betaine ABC transporter - putative membrane subunit |
||
| ybgA-phr Show fit | 0.74 |
conserved protein deoxyribodipyrimidine photolyase (photoreactivation) |
||
| yciGFE Show fit | 0.72 |
predicted protein conserved protein conserved protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of Sigma38
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 2.9 | GO:0009052 | pentose-phosphate shunt, non-oxidative branch(GO:0009052) |
| 0.3 | 1.9 | GO:0006598 | polyamine catabolic process(GO:0006598) putrescine catabolic process(GO:0009447) |
| 0.4 | 1.6 | GO:0070417 | cellular response to cold(GO:0070417) |
| 0.4 | 1.5 | GO:0051454 | pH elevation(GO:0045852) intracellular pH elevation(GO:0051454) |
| 0.4 | 1.2 | GO:0071474 | cellular hyperosmotic response(GO:0071474) |
| 0.2 | 1.2 | GO:0071978 | bacterial-type flagellum-dependent swarming motility(GO:0071978) |
| 0.2 | 1.0 | GO:0006972 | hyperosmotic response(GO:0006972) |
| 0.3 | 0.9 | GO:0032880 | regulation of protein localization(GO:0032880) regulation of protein transport(GO:0051223) regulation of establishment of protein localization(GO:0070201) |
| 0.2 | 0.9 | GO:0042450 | ornithine metabolic process(GO:0006591) arginine biosynthetic process via ornithine(GO:0042450) |
| 0.2 | 0.7 | GO:0051595 | response to methylglyoxal(GO:0051595) response to ketone(GO:1901654) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 2.8 | GO:0005887 | integral component of plasma membrane(GO:0005887) |
| 0.1 | 0.5 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.1 | 0.5 | GO:0031246 | intrinsic component of periplasmic side of cell outer membrane(GO:0031246) |
| 0.1 | 0.3 | GO:0032153 | cell division site(GO:0032153) |
| 0.0 | 0.3 | GO:0098533 | ATP-binding cassette (ABC) transporter complex(GO:0043190) ATPase dependent transmembrane transport complex(GO:0098533) ATPase complex(GO:1904949) |
| 0.0 | 0.3 | GO:0055052 | ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing(GO:0055052) |
| 0.1 | 0.2 | GO:0005950 | anthranilate synthase complex(GO:0005950) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 2.9 | GO:0016744 | transferase activity, transferring aldehyde or ketonic groups(GO:0016744) |
| 0.5 | 1.9 | GO:0003867 | 4-aminobutyrate transaminase activity(GO:0003867) |
| 0.5 | 1.6 | GO:0035251 | UDP-glucosyltransferase activity(GO:0035251) |
| 0.1 | 1.6 | GO:0016831 | carboxy-lyase activity(GO:0016831) |
| 0.5 | 1.5 | GO:0015199 | amino-acid betaine transmembrane transporter activity(GO:0015199) quaternary ammonium group transmembrane transporter activity(GO:0015651) |
| 0.1 | 1.1 | GO:0016830 | carbon-carbon lyase activity(GO:0016830) |
| 0.2 | 0.7 | GO:0015101 | organic cation transmembrane transporter activity(GO:0015101) |
| 0.0 | 0.7 | GO:0016836 | hydro-lyase activity(GO:0016836) |
| 0.2 | 0.5 | GO:0004033 | aldo-keto reductase (NADP) activity(GO:0004033) |
| 0.1 | 0.5 | GO:0003681 | bent DNA binding(GO:0003681) |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 0.1 | REACTOME HEMOSTASIS | Genes involved in Hemostasis |