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GSE55662: Plasticity of transcriptional regulation under antibiotic stress

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Results for MarA

Z-value: 0.73

Transcription factors associated with MarA

Gene Symbol Gene ID Gene Info
marA
marA MarA DNA-binding transcriptional dual regulator

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
marA-0.098.4e-01Click!
marR-0.098.4e-01Click!

Activity profile of MarA motif

Sorted Z-values of MarA motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
yncE 4.89
yncE
conserved protein
poxB 1.62
poxB
pyruvate oxidase
acnA 1.30
acnA
aconitate hydratase 1
marRAB 1.02
marB
marA
marR
multiple antibiotic resistance protein
MarA DNA-binding transcriptional dual regulator
MarR DNA-binding transcriptional repressor
pqiAB 0.87
pqiB
pqiA
paraquat-inducible protein B
paraquat-inducible protein A
micF 0.79
micF
MicF
fpr 0.71
fpr
flavodoxin-NADP+ reductase/ferredoxin-NADP+ reductase
nfo 0.53
nfo
endonuclease IV
waaYZ 0.51
waaZ
waaY
protein involved in KdoIII attachment during lipopolysaccharide core biosynthesis
lipopolysaccharide core heptose (II) kinase
acrZ 0.49
acrZ
small membrane protein that interacts with the AcrAB-TolC multidrug efflux pump
sodA 0.25
sodA
superoxide dismutase (Mn)
acrAB 0.22
acrB
acrA
AcrAB-TolC multidrug efflux pump - permease subunit
AcrAB-TolC multidrug efflux pump - membrane fusion protein
nfsB 0.20
nfsB
NAD(P)H nitroreductase NfsB
ybjC-nfsA-rimK-ybjN 0.11
nfsA
ybjN
ybjC
rimK
NADPH nitroreductase NfsA
predicted oxidoreductase
predicted inner membrane protein
ribosomal protein S6 modification protein
slp-dctR 0.09
slp
dctR
starvation lipoprotein
predicted DNA-binding transcriptional regulator
tolC-ygiABC 0.07
ygiC
ygiB
ygiA
tolC
predicted enzyme with ATPase activity
conserved outer membrane protein
predicted protein
TolC outer membrane channel

Network of associatons between targets according to the STRING database.

First level regulatory network of MarA

PNG image of the network

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

Log-likelihood per target  Total log-likelihood Term Description
0.4 1.3 GO:0006097 glyoxylate cycle(GO:0006097)
0.3 1.0 GO:0000303 response to superoxide(GO:0000303)
0.2 0.5 GO:0036460 cellular response to cell envelope stress(GO:0036460)
0.1 0.5 GO:0006284 base-excision repair(GO:0006284)
0.1 0.5 GO:0046401 lipopolysaccharide core region biosynthetic process(GO:0009244) lipopolysaccharide core region metabolic process(GO:0046401)
0.1 1.0 GO:0097237 cellular response to antibiotic(GO:0071236) cellular response to toxic substance(GO:0097237)
0.1 0.2 GO:0046256 trinitrotoluene metabolic process(GO:0018973) 2,4,6-trinitrotoluene metabolic process(GO:0018974) nitrotoluene metabolic process(GO:0019326) 2,4,6-trinitrotoluene catabolic process(GO:0046256) trinitrotoluene catabolic process(GO:0046260) nitrotoluene catabolic process(GO:0046263) toluene-containing compound metabolic process(GO:0072490) toluene-containing compound catabolic process(GO:0072491)
0.1 1.6 GO:0051289 pyruvate metabolic process(GO:0006090) protein tetramerization(GO:0051262) protein homotetramerization(GO:0051289)
0.0 0.1 GO:0031329 regulation of cellular catabolic process(GO:0031329) regulation of cellular carbohydrate catabolic process(GO:0043471)
0.0 0.1 GO:1900231 negative regulation of organelle organization(GO:0010639) negative regulation of cell projection organization(GO:0031345) post-translational protein modification(GO:0043687) response to alcohol(GO:0097305) regulation of single-species biofilm formation on inanimate substrate(GO:1900231) negative regulation of single-species biofilm formation on inanimate substrate(GO:1900232) negative regulation of organelle assembly(GO:1902116) negative regulation of bacterial-type flagellum assembly(GO:1902209)
0.0 0.2 GO:0006855 drug transmembrane transport(GO:0006855)
0.0 0.1 GO:0015891 siderophore transport(GO:0015891)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 6.1 GO:0030288 outer membrane-bounded periplasmic space(GO:0030288)
0.0 0.7 GO:0019867 outer membrane(GO:0019867)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.2 1.6 GO:0030976 thiamine pyrophosphate binding(GO:0030976)
0.1 0.3 GO:0016721 superoxide dismutase activity(GO:0004784) oxidoreductase activity, acting on superoxide radicals as acceptor(GO:0016721)
0.1 0.2 GO:0015307 drug:proton antiporter activity(GO:0015307)
0.1 1.3 GO:0003729 mRNA binding(GO:0003729) poly(A) RNA binding(GO:0044822)
0.1 0.7 GO:0071949 FAD binding(GO:0071949)
0.1 0.5 GO:0015238 drug transmembrane transporter activity(GO:0015238)
0.1 0.5 GO:0008081 endodeoxyribonuclease activity(GO:0004520) phosphoric diester hydrolase activity(GO:0008081)
0.0 0.1 GO:0034567 chromate reductase activity(GO:0034567)
0.0 5.1 GO:0003677 DNA binding(GO:0003677)
0.0 0.2 GO:0016646 oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor(GO:0016646)
0.0 0.1 GO:0015562 efflux transmembrane transporter activity(GO:0015562)