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GSE80451: E.coli grown aerobically and anaerobically

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Results for Fis

Z-value: 1.74

Transcription factors associated with Fis

Gene Symbol Gene ID Gene Info
fis
fis Fis DNA-binding transcriptional dual regulator

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
fis-0.983.5e-03Click!

Activity profile of Fis motif

Sorted Z-values of Fis motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
rrsA-ileT-alaT-rrlA-rrfA 6.03
rrlA
ileT
alaT
rrsA
rrfA
23S ribosomal RNA (rrlA)
tRNAileT
tRNAalaT
16S ribosomal RNA (rrsA)
5S ribosomal RNA (rrfA)
rrsE-gltV-rrlE-rrfE 5.84
rrlE
gltV
rrsE
rrfE
rrlE 23S ribosomal RNA
tRNAgltV
rrsE 16S ribosomal RNA
rrfE 5S ribosomal RNA
rrsD-ileU-alaU-rrlD-rrfD-thrV-rrfF 5.75
rrlD
ileU
alaU
thrV
rrfF
rrsD
rrfD
rrlD 23S ribosomal RNA
tRNAileU
tRNAalaU
tRNAthrV
rrfF 5S ribosomal RNA
rrsD 16S ribosomal RNA
rrfD 5S ribosomal RNA
rrsB-gltT-rrlB-rrfB 5.74
rrlB
gltT
rrfB
rrsB
rrlB 23S ribosomal RNA
tRNAgltT
rrfB 5S ribosomal RNA
rrsB 16S ribosomal RNA
rrsC-gltU-rrlC-rrfC 5.72
rrlC
gltU
rrfC
rrsC
rrlC 23S ribosomal RNA
tRNAgltU
rrfC 5S ribosomal RNA
rrsC 16S ribosomal RNA
rrsG-gltW-rrlG-rrfG 5.68
rrlG
gltW
rrfG
rrsG
rrlG 23S ribosomal RNA
tRNAgltW
rrfG 5S ribosomal RNA
rrsG 16S ribosomal RNA
rrsH-ileV-alaV-rrlH-rrfH 5.44
rrlH
rrfH
rrsH
ileV
alaV
rrlH 23S ribosomal RNA
rrfH 5S ribosomal RNA
rrsH 16S ribosomal RNA
tRNAileV
tRNAalaV
glpABC 3.62
glpA
glpC
glpB
anaerobic glycerol-3-phosphate dehydrogenase subunit A
anaerobic glycerol-3-phosphate dehydrogenase subunit C
anaerobic glycerol-3-phosphate dehydrogenase subunit B
leuX 3.27
leuX
tRNAleuX
cspA 2.91
cspA
CspA DNA-binding transcriptional activator
glnA 2.84
glnA
glutamine synthetase
aspV 2.81
aspV
tRNAaspV
acnB 2.67
acnB
bifunctional aconitate hydratase 2 and 2-methylisocitrate dehydratase
mglAC 2.52
mglA
mglC
D-galactose / D-galactoside ABC transporter - ATP binding subunit
D-galactose / D-galactoside ABC transporter - membrane subunit
glpTQ 2.24
glpT
glpQ
glycerol-3-phosphate:phosphate antiporter
glycerophosphoryl diester phosphodiesterase, periplasmic
crp 2.17
crp
CRP transcriptional dual regulator
mazEFG 1.97
mazE
mazF
mazG
MazE antitoxin of the MazF-MazE toxin-antitoxin system
MazF toxin of the MazF-MazE toxin-antitoxin system that exhibits ribonuclease activity
nucleoside triphosphate pyrophosphohydrolase
cyoABCDE 1.97
cyoA
cyoC
cyoB
cyoE
cyoD
cytochrome bo terminal oxidase subunit II
cytochrome bo terminal oxidase subunit III
cytochrome bo terminal oxidase subunit I
heme O synthase
cytochrome bo terminal oxidase subunit IV
gyrA 1.67
gyrA
DNA gyrase, subunit A
thrU-tyrU-glyT-thrT-tufB 1.57
tufB
thrT
thrU
glyT
tyrU
elongation factor Tu
tRNAthrT
tRNAthrU
tRNAglyT
tRNAtyrU
gyrB 1.55
gyrB
DNA gyrase, subunit B
queA 1.46
queA
S-adenosylmethionine:tRNA ribosyltransferase-isomerase
bglGFB 1.32
bglB
bglG
bglF
6-phospho-β-glucosidase B; cryptic
BglG transcriptional antiterminator
BglF
marRAB 1.32
marB
marA
marR
multiple antibiotic resistance protein
MarA DNA-binding transcriptional dual regulator
MarR DNA-binding transcriptional repressor
hupB 1.22
hupB
transcriptional dual regulator HU-β, NS1 (HU-1)
carAB 1.21
carB
carA
carbamoyl phosphate synthetase, β chain
carbamoyl phosphate synthetase, α chain
pheU 1.20
pheU
tRNApheU
pheV 1.20
pheV
tRNApheV
hupA 1.02
hupA
transcriptional dual regulator HU-α (HU-2)
gltX 0.90
gltX
glutamate-tRNA ligase
bglG 0.82
bglG
BglG transcriptional antiterminator
glcC 0.81
glcC
GlcC transcriptional dual regulator
glnALG 0.75
glnL
glnA
glnG
NtrB
glutamine synthetase
NtrC transcriptional dual regulator
nrfABCDEFG 0.71
nrfF
nrfG
nrfD
nrfE
nrfB
nrfC
nrfA
activator of formate-dependent nitrite reductase complex
NrfG
formate dependent nitrite reductase - NrfD subunit
formate-dependent nitrite reductase; possible assembly function
formate-dependent nitrite reductase - penta-heme cytochrome c
formate-dependent nitrite reductase, 4Fe-4S subunit
formate dependent nitrite reductase - NrfA subunit
lpd 0.63
lpd
lipoamide dehydrogenase
sra 0.62
sra
30S ribosomal subunit protein S22
grcA 0.58
grcA
stress-induced alternate pyruvate formate-lyase subunit
guaBA 0.56
guaB
guaA
IMP dehydrogenase
GMP synthetase
hyaABCDEF 0.48
hyaB
hyaC
hyaA
hyaF
hyaD
hyaE
hydrogenase 1, large subunit
hydrogenase 1, b-type cytochrome subunit
hydrogenase 1, small subunit
protein involved in nickel incorporation into hydrogenase 1 proteins
protein involved in processing of HyaA and HyaB proteins
protein involved in quality control of HyaA
acs-yjcH-actP 0.32
acs
actP
yjcH
acetyl-CoA synthetase (AMP-forming)
acetate / glycolate : cation symporter
conserved inner membrane protein
gadAX 0.26
gadX
gadA
GadX DNA-binding transcriptional dual regulator
glutamate decarboxylase A subunit
nirBDC-cysG 0.24
nirD
cysG
nirC
nirB
nitrite reductase, small subunit
siroheme synthase subunit
nitrite transporter NirC
nitrite reductase, large subunit
argW 0.12
argW
tRNAargW
ogt 0.10
ogt
O6-alkylguanine-DNA-alkyltransferase
rplM-rpsI 0.10
rplM
rpsI
50S ribosomal subunit protein L13
30S ribosomal subunit protein S9
yeaR-yoaG 0.07
yoaG
yeaR
predicted protein
conserved protein

Network of associatons between targets according to the STRING database.

First level regulatory network of Fis

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
1.2 3.6 GO:0019676 ammonia assimilation cycle(GO:0019676)
1.0 2.9 GO:0043242 negative regulation of protein complex disassembly(GO:0043242) negative regulation of DNA-templated transcription, termination(GO:0060567)
0.9 2.7 GO:0019626 glyoxylate cycle(GO:0006097) short-chain fatty acid catabolic process(GO:0019626)
0.9 2.6 GO:0006265 DNA topological change(GO:0006265)
0.8 2.5 GO:0015765 methylgalactoside transport(GO:0015765)
0.7 2.0 GO:0034661 ncRNA catabolic process(GO:0034661)
0.6 2.2 GO:0015748 organophosphate ester transport(GO:0015748)
0.5 2.2 GO:0007584 response to nutrient(GO:0007584)
0.4 1.6 GO:1902600 hydrogen ion transmembrane transport(GO:1902600)
0.3 1.2 GO:0006541 glutamine metabolic process(GO:0006541)
0.3 2.0 GO:0042455 ribonucleoside biosynthetic process(GO:0042455)
0.2 0.7 GO:0017003 protein-heme linkage(GO:0017003) protein-tetrapyrrole linkage(GO:0017006) cytochrome c-heme linkage(GO:0018063)
0.2 0.6 GO:0019464 glycine decarboxylation via glycine cleavage system(GO:0019464)
0.2 1.7 GO:0046434 organophosphate catabolic process(GO:0046434)
0.1 1.3 GO:0097237 cellular response to antibiotic(GO:0071236) cellular response to toxic substance(GO:0097237)
0.1 1.1 GO:0006779 porphyrin-containing compound metabolic process(GO:0006778) porphyrin-containing compound biosynthetic process(GO:0006779)
0.1 0.3 GO:0015710 tellurite transport(GO:0015710) peptidyl-lysine acetylation(GO:0018394) post-translational protein modification(GO:0043687)
0.1 0.5 GO:0016485 protein processing(GO:0016485)
0.0 1.3 GO:1901657 glycosyl compound metabolic process(GO:1901657)
0.0 0.1 GO:0035510 DNA dealkylation involved in DNA repair(GO:0006307) DNA dealkylation(GO:0035510)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.9 2.6 GO:0009295 nucleoid(GO:0009295)
0.7 2.0 GO:0070069 cytochrome complex(GO:0070069)
0.1 0.4 GO:0031237 intrinsic component of periplasmic side of plasma membrane(GO:0031237)
0.0 1.9 GO:1904949 ATP-binding cassette (ABC) transporter complex(GO:0043190) ATPase dependent transmembrane transport complex(GO:0098533) ATPase complex(GO:1904949)
0.0 1.3 GO:1902494 catalytic complex(GO:1902494)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
1.2 3.6 GO:0016901 oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor(GO:0016901)
0.9 3.6 GO:0016211 ammonia ligase activity(GO:0016211)
0.9 2.6 GO:0003916 DNA topoisomerase activity(GO:0003916)
0.8 2.5 GO:0015592 methylgalactoside transmembrane transporter activity(GO:0015592)
0.7 2.2 GO:0015166 polyol transmembrane transporter activity(GO:0015166)
0.7 2.9 GO:0001070 RNA binding transcription factor activity(GO:0001070) transcription antitermination factor activity, RNA binding(GO:0001072)
0.6 1.8 GO:0016884 carbon-nitrogen ligase activity, with glutamine as amido-N-donor(GO:0016884)
0.5 1.6 GO:0048039 ubiquinone binding(GO:0048039)
0.5 2.0 GO:0047429 nucleoside-triphosphate diphosphatase activity(GO:0047429)
0.4 1.3 GO:0008706 6-phospho-beta-glucosidase activity(GO:0008706)
0.2 0.7 GO:0016662 oxidoreductase activity, acting on other nitrogenous compounds as donors, cytochrome as acceptor(GO:0016662)
0.2 0.5 GO:0005048 signal sequence binding(GO:0005048)
0.1 2.5 GO:0003729 mRNA binding(GO:0003729) poly(A) RNA binding(GO:0044822)
0.1 0.3 GO:0015118 tellurite transmembrane transporter activity(GO:0015118) tellurite uptake transmembrane transporter activity(GO:0015654)
0.1 0.6 GO:0016668 oxidoreductase activity, acting on a sulfur group of donors, NAD(P) as acceptor(GO:0016668)
0.1 0.2 GO:0004325 ferrochelatase activity(GO:0004325)
0.1 0.9 GO:0016875 aminoacyl-tRNA ligase activity(GO:0004812) ligase activity, forming carbon-oxygen bonds(GO:0016875) ligase activity, forming aminoacyl-tRNA and related compounds(GO:0016876)
0.0 1.6 GO:0001067 regulatory region DNA binding(GO:0000975) regulatory region nucleic acid binding(GO:0001067) transcription regulatory region DNA binding(GO:0044212)
0.0 0.1 GO:0008172 S-methyltransferase activity(GO:0008172)

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.5 2.2 REACTOME INNATE IMMUNE SYSTEM Genes involved in Innate Immune System