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GSE67402: E.coli regulatory changes under long-term starvation

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Results for GadX

Z-value: 0.72

Transcription factors associated with GadX

Gene Symbol Gene ID Gene Info
gadX
gadX GadX DNA-binding transcriptional dual regulator

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
gadX-0.581.6e-03Click!
gadW-0.385.1e-02Click!

Activity profile of GadX motif

Sorted Z-values of GadX motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
gadE 6.40
gadE
GadE DNA-binding transcriptional activator
hdeD 5.31
hdeD
acid-resistance membrane protein
gadY 3.60
gadY
GadY
ybaST 3.37
ybaS
ybaT
glutaminase
putative transport protein, archaeal/bacterial transporter (ABT) family
lon 2.80
lon
DNA-binding, ATP-dependent protease La
uspE 2.79
uspE
universal stress protein with a role cellular motility
glnK-amtB 2.58
glnK
amtB
nitrogen regulatory protein GlnK
ammonia / ammonium transporter
gadBC 2.15
gadB
gadC
glutamate decarboxylase B subunit
glutamic acid:4-aminobutyrate antiporter
gadW 1.78
gadW
GadW DNA-binding transcriptional dual regulator
cadBA 1.73
cadA
cadB
lysine decarboxylase 1
lysine:cadaverine antiporter
gadX 1.51
gadX
GadX DNA-binding transcriptional dual regulator
slp-dctR 1.46
slp
dctR
starvation lipoprotein
predicted DNA-binding transcriptional regulator
gadXW 1.05
gadW
gadX
GadW DNA-binding transcriptional dual regulator
GadX DNA-binding transcriptional dual regulator
hdeAB-yhiD 0.40
yhiD
hdeB
hdeA
inner membrane protein YhiD
HdeB monomer
HdeA monomer, chaperone active form
gadE-mdtEF 0.39
mdtF
mdtE
gadE
MdtEF-TolC multidrug efflux pump - permease subunit
MdtEF-TolC multidrug efflux pump - membrane fusion protein
GadE DNA-binding transcriptional activator
rpoS 0.37
rpoS
RNA polymerase, sigma S (sigma 38) factor

Network of associatons between targets according to the STRING database.

First level regulatory network of GadX

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
0.9 2.6 GO:0006808 regulation of nitrogen utilization(GO:0006808)
0.7 2.2 GO:0055067 regulation of pH(GO:0006885) cellular monovalent inorganic cation homeostasis(GO:0030004) regulation of cellular pH(GO:0030641) pH elevation(GO:0045852) regulation of intracellular pH(GO:0051453) intracellular pH elevation(GO:0051454) monovalent inorganic cation homeostasis(GO:0055067)
0.7 10.8 GO:0009268 response to pH(GO:0009268)
0.6 2.8 GO:0006515 misfolded or incompletely synthesized protein catabolic process(GO:0006515)
0.6 2.8 GO:0071214 cellular response to hydrogen peroxide(GO:0070301) cellular response to abiotic stimulus(GO:0071214)
0.5 1.5 GO:0043471 regulation of cellular catabolic process(GO:0031329) regulation of cellular carbohydrate catabolic process(GO:0043471)
0.1 0.4 GO:0001121 transcription from bacterial-type RNA polymerase promoter(GO:0001121)
0.0 0.4 GO:0006855 drug transmembrane transport(GO:0006855)
0.0 7.0 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
0.0 15.9 GO:0005886 plasma membrane(GO:0005886)
0.0 1.5 GO:0019867 outer membrane(GO:0019867)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.6 2.8 GO:0004176 ATP-dependent peptidase activity(GO:0004176)
0.5 4.3 GO:0008519 ammonium transmembrane transporter activity(GO:0008519)
0.1 2.2 GO:0015297 antiporter activity(GO:0015297)
0.1 0.4 GO:0051087 chaperone binding(GO:0051087)
0.1 0.4 GO:0001000 bacterial-type RNA polymerase core enzyme binding(GO:0001000)
0.0 0.4 GO:0015238 drug transmembrane transporter activity(GO:0015238)
0.0 4.7 GO:0003677 DNA binding(GO:0003677)