ISMARA results: YdeO

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GSE55662: Plasticity of transcriptional regulation under antibiotic stress

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Results for YdeO

Z-value: 1.21

Transcription factors associated with YdeO

Gene Symbol	Gene ID	Gene Info
ydeO RegulonDB EcoCyc	ydeO	YdeO DNA-binding transcriptional dual regulator

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
ydeO		0.95	3.1e-04	Click!

Activity profile of YdeO motif

Sorted Z-values of YdeO motif

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Promoter	Log-likelihood	Gene	Gene Info
safA-ydeO Show fit	7.69	ydeO RegulonDB EcoCyc Show fit safA RegulonDB EcoCyc Show fit	YdeO DNA-binding transcriptional dual regulator two-component system connector protein
hyaABCDEF Show fit	5.02	hyaB RegulonDB EcoCyc Show fit hyaC RegulonDB EcoCyc Show fit hyaA RegulonDB EcoCyc Show fit hyaF RegulonDB EcoCyc Show fit hyaD RegulonDB EcoCyc Show fit hyaE RegulonDB EcoCyc Show fit	hydrogenase 1, large subunit hydrogenase 1, b-type cytochrome subunit hydrogenase 1, small subunit protein involved in nickel incorporation into hydrogenase 1 proteins protein involved in processing of HyaA and HyaB proteins protein involved in quality control of HyaA
gadW Show fit	3.15	gadW RegulonDB EcoCyc Show fit	GadW DNA-binding transcriptional dual regulator
yiiS-uspD Show fit	2.23	yiiS RegulonDB EcoCyc Show fit uspD RegulonDB EcoCyc Show fit	conserved protein stress protein involved in resistance to UV irradiation
appCBXA Show fit	2.06	appC RegulonDB EcoCyc Show fit appB RegulonDB EcoCyc Show fit appA RegulonDB EcoCyc Show fit appX RegulonDB EcoCyc Show fit	cytochrome bd-II terminal oxidase subunit I cytochrome bd-II terminal oxidase subunit II periplasmic protein with phosphoanhydride phosphatase and multiple inositol-polyphosphate phosphatase activity small outer membrane protein
slp-dctR Show fit	1.48	slp RegulonDB EcoCyc Show fit dctR RegulonDB EcoCyc Show fit	starvation lipoprotein predicted DNA-binding transcriptional regulator
gadE Show fit	1.05	gadE RegulonDB EcoCyc Show fit	GadE DNA-binding transcriptional activator

Showing 1 to 7 of 7 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of YdeO

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	7.7	GO:1902680	positive regulation of transcription, DNA-templated(GO:0045893) positive regulation of RNA metabolic process(GO:0051254) positive regulation of RNA biosynthetic process(GO:1902680) positive regulation of nucleic acid-templated transcription(GO:1903508)
1.0	5.0	GO:0016485	protein processing(GO:0016485)
0.0	3.1	GO:0006974	cellular response to DNA damage stimulus(GO:0006974)
0.5	2.1	GO:0019646	aerobic electron transport chain(GO:0019646)
0.5	1.5	GO:0031329	regulation of cellular catabolic process(GO:0031329) regulation of cellular carbohydrate catabolic process(GO:0043471)

Showing 1 to 5 of 5 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	7.7	GO:0005887	integral component of plasma membrane(GO:0005887)
1.0	5.0	GO:0031237	intrinsic component of periplasmic side of plasma membrane(GO:0031237)
0.7	2.1	GO:0070069	cytochrome complex(GO:0070069)
0.0	1.5	GO:0019867	outer membrane(GO:0019867)

Showing 1 to 4 of 4 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	10.8	GO:0003700	transcription factor activity, sequence-specific DNA binding(GO:0003700)
1.7	5.0	GO:0005048	signal sequence binding(GO:0005048)
0.7	2.1	GO:0050308	oxidoreductase activity, acting on diphenols and related substances as donors(GO:0016679) oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor(GO:0016682) sugar-phosphatase activity(GO:0050308)

Showing 1 to 3 of 3 entries

Results for YdeO

Z-value: 1.21

Transcription factors associated with YdeO

Activity-expression correlation:

Activity profile of YdeO motif

Sorted Z-values of YdeO motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of YdeO

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

Gene overrepresentation in cellular component category:

Gene overrepresentation in molecular function category: