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

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Results for Sigma28

Z-value: 1.57

Transcription factors associated with Sigma28

Gene Symbol Gene ID Gene Info
fliA
fliA RNA polymerase sigma factor FliA

Activity profile of Sigma28 motif

Sorted Z-values of Sigma28 motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
fliFGHIJK 17.70
fliI
fliH
fliK
fliJ
fliG
fliF
flagellum-specific ATP synthase FliI
flagellar biosynthesis protein FliH
flagellar hook-length control protein FliK
flagellar biosynthesis protein FliJ
flagellar motor switch protein FliG
flagellar M-ring protein FliF; basal-body MS(membrane and supramembrane)-ring and collar protein
fliLMNOPQR 16.93
fliQ
fliP
fliR
fliM
fliL
fliO
fliN
flagellar biosynthesis protein FliQ
flagellar biosynthesis protein FliP
flagellar biosynthesis protein FliR
flagellar motor switch protein FliM
flagellar protein FliL
flagellar biosynthesis protein FliO
flagellar motor switch protein FliN
fliDST 16.92
fliT
fliD
fliS
flagellar biosynthesis protein FliT
flagellar cap protein FliD; filament capping protein; enables filament assembly
flagellar biosynthesis protein FliS
ygbK 15.34
ygbK
conserved protein
pdeH 14.57
pdeH
c-di-GMP phosphodiesterase
yhiL 14.36
yhiL
predicted protein
yjcS 12.28
yjcS
alkyl sulfatase
fliC 10.58
fliC
flagellar biosynthesis; flagellin, filament structural protein
ycgR 10.42
ycgR
molecular brake that regulates flagellar motility in response to c-di-GMP
tsr 10.21

ves 9.81
ves
conserved protein
aer 8.27
aer
aerotaxis sensor receptor, flavoprotein
crfC-yjcZ 7.72
crfC
yjcZ
clamp-binding sister replication fork colocalization protein
conserved protein
trg 6.19

tar-tap-cheRBYZ 2.21
cheR
cheZ
cheY
cheB
chemotaxis protein methyltransferase/chemotaxis protein methyltransferase/chemotaxis protein methyltransferase/chemotaxis protein methyltransferase/chemotaxis protein methyltransferase
CheZ
chemotaxis regulator transmitting signal to flagellar motor component
CheB
ynjH 1.93
ynjH
predicted protein
motAB-cheAW 1.70
motA
motB
cheW
cheA
MotA protein, proton conductor component of motor; no effect on switching
MotB protein, enables flagellar motor rotation, linking torque machinery to cell wall
CheW
CheA(S)

Network of associatons between targets according to the STRING database.

Gene Ontology Analysis

Gene overrepresentation in biological process category:

Log-likelihood per target  Total log-likelihood Term Description
6.3 25.2 GO:0050918 positive chemotaxis(GO:0050918)
3.3 63.5 GO:0001539 cilium or flagellum-dependent cell motility(GO:0001539) bacterial-type flagellum-dependent cell motility(GO:0071973) archaeal or bacterial-type flagellum-dependent cell motility(GO:0097588)
1.5 12.3 GO:0071466 xenobiotic metabolic process(GO:0006805) response to xenobiotic stimulus(GO:0009410) cellular response to xenobiotic stimulus(GO:0071466)
1.0 7.7 GO:0007059 chromosome segregation(GO:0007059)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
12.9 51.5 GO:0044463 bacterial-type flagellum part(GO:0044461) cell projection part(GO:0044463)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
2.9 14.6 GO:0071111 cyclic-guanylate-specific phosphodiesterase activity(GO:0071111)
2.1 10.4 GO:0030551 cyclic nucleotide binding(GO:0030551) cyclic-di-GMP binding(GO:0035438)
0.3 8.3 GO:0004871 signal transducer activity(GO:0004871)
0.3 2.2 GO:0004721 phosphoprotein phosphatase activity(GO:0004721)
0.2 12.2 GO:0016788 hydrolase activity, acting on ester bonds(GO:0016788)
0.0 3.5 GO:0042802 identical protein binding(GO:0042802)