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GSE55662: Plasticity of transcriptional regulation under antibiotic stress
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Results for CRP
Z-value: 0.92
Transcription factors associated with CRP
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| crp | 0.19 | 6.5e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| fur Show fit | 4.30 |
Fur transcriptional dual regulator |
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| sodB Show fit | 1.50 |
superoxide dismutase (Fe) |
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| preTA Show fit | 1.41 |
NADH-dependent dihydropyrimidine dehydrogenase subunit NADH-dependent dihydropyrimidine dehydrogenase subunit |
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| ompF Show fit | 1.17 |
outer membrane porin F |
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| pck Show fit | 1.01 |
phosphoenolpyruvate carboxykinase (ATP) |
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| raiA Show fit | 0.95 |
stationary phase translation inhibitor and ribosome stability factor |
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| mdh Show fit | 0.82 |
malate dehydrogenase |
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| glgS Show fit | 0.82 |
surface composition regulator |
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| ompW Show fit | 0.81 |
outer membrane protein W |
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| ompA Show fit | 0.79 |
outer membrane porin A |
Network of associatons between targets according to the STRING database.
First level regulatory network of CRP
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 2.4 | GO:0006099 | tricarboxylic acid cycle(GO:0006099) citrate metabolic process(GO:0006101) |
| 0.5 | 1.4 | GO:0006208 | pyrimidine nucleobase catabolic process(GO:0006208) |
| 0.5 | 1.4 | GO:0000303 | response to superoxide(GO:0000303) superoxide metabolic process(GO:0006801) |
| 0.3 | 1.4 | GO:0010675 | regulation of cellular carbohydrate metabolic process(GO:0010675) |
| 0.2 | 1.4 | GO:0006094 | gluconeogenesis(GO:0006094) hexose biosynthetic process(GO:0019319) |
| 0.1 | 1.2 | GO:0006855 | drug transmembrane transport(GO:0006855) |
| 0.4 | 1.1 | GO:0006059 | hexitol metabolic process(GO:0006059) hexitol catabolic process(GO:0019407) |
| 0.3 | 1.0 | GO:0051828 | entry into host cell(GO:0030260) entry into host(GO:0044409) entry into cell of other organism involved in symbiotic interaction(GO:0051806) entry into other organism involved in symbiotic interaction(GO:0051828) |
| 0.3 | 1.0 | GO:0006108 | malate metabolic process(GO:0006108) |
| 0.3 | 1.0 | GO:0015755 | fructose transport(GO:0015755) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 9.3 | GO:0005829 | cytosol(GO:0005829) |
| 0.4 | 2.2 | GO:0046930 | pore complex(GO:0046930) |
| 0.1 | 1.4 | GO:0019898 | extrinsic component of membrane(GO:0019898) |
| 0.1 | 1.2 | GO:0015935 | small ribosomal subunit(GO:0015935) cytosolic small ribosomal subunit(GO:0022627) |
| 0.2 | 0.6 | GO:0045273 | respiratory chain complex II(GO:0045273) plasma membrane respiratory chain complex II(GO:0045274) |
| 0.2 | 0.5 | GO:0009295 | nucleoid(GO:0009295) |
| 0.0 | 0.3 | GO:0005618 | cell wall(GO:0005618) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 5.0 | GO:0008270 | zinc ion binding(GO:0008270) |
| 0.2 | 2.4 | GO:0015288 | porin activity(GO:0015288) wide pore channel activity(GO:0022829) |
| 0.5 | 1.4 | GO:0004784 | superoxide dismutase activity(GO:0004784) oxidoreductase activity, acting on superoxide radicals as acceptor(GO:0016721) |
| 0.2 | 1.3 | GO:0030955 | potassium ion binding(GO:0030955) |
| 0.3 | 1.2 | GO:0005469 | succinate:fumarate antiporter activity(GO:0005469) |
| 0.3 | 1.1 | GO:0003954 | NADH dehydrogenase activity(GO:0003954) |
| 0.2 | 1.1 | GO:0005337 | nucleoside transmembrane transporter activity(GO:0005337) nucleobase-containing compound transmembrane transporter activity(GO:0015932) |
| 0.3 | 1.0 | GO:0008861 | formate C-acetyltransferase activity(GO:0008861) |
| 0.1 | 0.9 | GO:0043024 | ribosomal small subunit binding(GO:0043024) |
| 0.2 | 0.8 | GO:0016841 | ammonia-lyase activity(GO:0016841) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.2 | PID ANGIOPOIETIN RECEPTOR PATHWAY | Angiopoietin receptor Tie2-mediated signaling |
| 0.1 | 0.2 | NABA MATRISOME ASSOCIATED | Ensemble of genes encoding ECM-associated proteins including ECM-affilaited proteins, ECM regulators and secreted factors |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 0.6 | REACTOME TCA CYCLE AND RESPIRATORY ELECTRON TRANSPORT | Genes involved in The citric acid (TCA) cycle and respiratory electron transport |
| 0.0 | 0.4 | REACTOME METABOLISM OF CARBOHYDRATES | Genes involved in Metabolism of carbohydrates |
| 0.1 | 0.2 | REACTOME DEVELOPMENTAL BIOLOGY | Genes involved in Developmental Biology |
| 0.0 | 0.1 | REACTOME PLATELET ACTIVATION SIGNALING AND AGGREGATION | Genes involved in Platelet activation, signaling and aggregation |