ISMARA results: RcsB

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GSE55662: Plasticity of transcriptional regulation under antibiotic stress

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Results for RcsB

Z-value: 1.03

Transcription factors associated with RcsB

Gene Symbol	Gene ID	Gene Info
rcsB RegulonDB EcoCyc	rcsB	DNA-binding transcriptional activator RcsB

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
rcsB		0.47	2.4e-01	Click!

Activity profile of RcsB motif

Sorted Z-values of RcsB motif

Top targets:

Promoter	Log-likelihood	Transcript	Gene	Gene Info
hdeD Show fit	2.90		hdeD RegulonDB EcoCyc Show fit	acid-resistance membrane protein
osmB Show fit	2.74		osmB RegulonDB EcoCyc Show fit	OsmB osmotically inducible lipoprotein
osmC Show fit	2.45		osmC RegulonDB EcoCyc Show fit	osmotically inducible peroxiredoxin
ftsAZ Show fit	1.86		ftsZ RegulonDB EcoCyc Show fit ftsA RegulonDB EcoCyc Show fit	essential cell division protein FtsZ essential cell division protein FtsA
gadY Show fit	1.76		gadY RegulonDB EcoCyc Show fit	GadY
gadBC Show fit	1.72		gadB RegulonDB EcoCyc Show fit gadC RegulonDB EcoCyc Show fit	glutamate decarboxylase B subunit glutamic acid:4-aminobutyrate antiporter
lolA-rarA Show fit	0.82		rarA RegulonDB EcoCyc Show fit lolA RegulonDB EcoCyc Show fit	recombination factor periplasmic chaperone, effects translocation of lipoproteins from inner membrane to outer
hdeAB-yhiD Show fit	0.70		yhiD RegulonDB EcoCyc Show fit hdeB RegulonDB EcoCyc Show fit hdeA RegulonDB EcoCyc Show fit	inner membrane protein YhiD HdeB monomer HdeA monomer, chaperone active form
gadAX Show fit	0.29		gadX RegulonDB EcoCyc Show fit gadA RegulonDB EcoCyc Show fit	GadX DNA-binding transcriptional dual regulator glutamate decarboxylase A subunit

Network of associatons between targets according to the STRING database.

First level regulatory network of RcsB

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

Log-likelihood per target	Total log-likelihood	Term	Description
0.5	2.0	GO:0051454	pH elevation(GO:0045852) intracellular pH elevation(GO:0051454)
0.3	1.9	GO:0051258	protein polymerization(GO:0051258)
0.3	0.8	GO:0072321	chaperone-mediated protein transport(GO:0072321)
0.3	2.4	GO:0006972	hyperosmotic response(GO:0006972)
0.2	3.0	GO:0009268	response to pH(GO:0009268)

Gene overrepresentation in cellular component category:

Log-likelihood per target	Total log-likelihood	Term	Description
0.3	0.8	GO:0005657	replication fork(GO:0005657) replisome(GO:0030894)
0.2	1.9	GO:0032153	cell division site(GO:0032153)

Gene overrepresentation in molecular function category:

Log-likelihood per target	Total log-likelihood	Term	Description
0.8	2.4	GO:0051920	peroxiredoxin activity(GO:0051920)
0.2	0.7	GO:0051087	chaperone binding(GO:0051087)
0.1	1.9	GO:0005525	GTP binding(GO:0005525)
0.1	1.7	GO:0015297	antiporter activity(GO:0015297)
0.1	0.8	GO:0008565	protein transporter activity(GO:0008565)
0.0	0.3	GO:0001140	transcriptional activator activity, bacterial-type RNA polymerase core promoter proximal region sequence-specific binding(GO:0001140)