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GSE55662: Plasticity of transcriptional regulation under antibiotic stress

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Results for SoxS

Z-value: 1.13

Transcription factors associated with SoxS

Gene Symbol Gene ID Gene Info
soxS
soxS SoxS DNA-binding transcriptional dual regulator

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
soxS0.667.6e-02Click!

Activity profile of SoxS motif

Sorted Z-values of SoxS motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
fldA-uof-fur 4.97
fur
uof
fldA
Fur transcriptional dual regulator
RyhB-regulated fur leader peptide
flavodoxin 1
tolC-ygiABC 3.97
ygiC
ygiB
ygiA
tolC
predicted enzyme with ATPase activity
conserved outer membrane protein
predicted protein
TolC outer membrane channel
sodA 3.97
sodA
superoxide dismutase (Mn)
uof-fur 3.76
fur
uof
Fur transcriptional dual regulator
RyhB-regulated fur leader peptide
soxS 3.32
soxS
SoxS DNA-binding transcriptional dual regulator
zwf 2.58
zwf
glucose-6-phosphate dehydrogenase (NADP+)
ribA 2.41
ribA
GTP cyclohydrolase II
ydbK 2.38
ydbK
pyruvate:flavodoxin oxidoreductase
fumC 2.26
fumC
fumarase C
rob 2.02
rob
Rob DNA-binding transcriptional dual regulator
acrAB 1.40
acrB
acrA
AcrAB-TolC multidrug efflux pump - permease subunit
AcrAB-TolC multidrug efflux pump - membrane fusion protein
pgi 1.19
pgi
phosphoglucose isomerase
ybjC-nfsA-rimK-ybjN 1.12
nfsA
ybjN
ybjC
rimK
NADPH nitroreductase NfsA
predicted oxidoreductase
predicted inner membrane protein
ribosomal protein S6 modification protein
nfo 1.09
nfo
endonuclease IV
nfsB 0.73
nfsB
NAD(P)H nitroreductase NfsB
fldB 0.66
fldB
flavodoxin 2
micF 0.58
micF
MicF
inaA 0.31
inaA
pH-inducible protein involved in stress response

Network of associatons between targets according to the STRING database.

First level regulatory network of SoxS

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
1.3 4.0 GO:0006801 superoxide metabolic process(GO:0006801)
0.9 2.6 GO:0009372 quorum sensing(GO:0009372)
0.8 2.3 GO:0006108 malate metabolic process(GO:0006108)
0.7 4.0 GO:0015891 siderophore transport(GO:0015891)
0.6 2.4 GO:0042727 riboflavin metabolic process(GO:0006771) riboflavin biosynthetic process(GO:0009231) flavin-containing compound metabolic process(GO:0042726) flavin-containing compound biosynthetic process(GO:0042727)
0.4 1.1 GO:1900232 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)
0.3 1.1 GO:0006284 base-excision repair(GO:0006284)
0.3 8.7 GO:0006417 regulation of translation(GO:0006417)
0.2 0.7 GO:0019326 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)
0.2 1.4 GO:0006855 drug transmembrane transport(GO:0006855)
0.1 1.2 GO:0034599 cellular response to oxidative stress(GO:0034599)
0.0 2.0 GO:2001141 regulation of transcription, DNA-templated(GO:0006355) regulation of nucleic acid-templated transcription(GO:1903506) regulation of RNA biosynthetic process(GO:2001141)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 5.4 GO:1990351 transmembrane transporter complex(GO:1902495) transporter complex(GO:1990351)
0.0 16.6 GO:0005829 cytosol(GO:0005829)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
1.3 4.0 GO:0016721 superoxide dismutase activity(GO:0004784) oxidoreductase activity, acting on superoxide radicals as acceptor(GO:0016721)
1.1 3.3 GO:0001098 basal transcription machinery binding(GO:0001098) bacterial-type RNA polymerase holo enzyme binding(GO:0001108)
0.6 2.4 GO:0019238 cyclohydrolase activity(GO:0019238)
0.6 4.0 GO:0015562 efflux transmembrane transporter activity(GO:0015562)
0.5 1.4 GO:0015307 drug:proton antiporter activity(GO:0015307)
0.5 2.3 GO:0004333 fumarate hydratase activity(GO:0004333)
0.4 1.1 GO:0034567 chromate reductase activity(GO:0034567)
0.1 1.1 GO:0004520 endodeoxyribonuclease activity(GO:0004520) phosphoric diester hydrolase activity(GO:0008081)
0.1 7.4 GO:0008270 zinc ion binding(GO:0008270)
0.1 0.7 GO:0016646 oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor(GO:0016646)
0.1 2.6 GO:0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor(GO:0016616)
0.1 1.2 GO:0016861 intramolecular oxidoreductase activity, interconverting aldoses and ketoses(GO:0016861)
0.1 0.7 GO:0010181 FMN binding(GO:0010181)
0.0 2.0 GO:0043565 sequence-specific DNA binding(GO:0043565)
0.0 0.5 GO:0016903 oxidoreductase activity, acting on the aldehyde or oxo group of donors(GO:0016903)