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

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Results for PdhR

Z-value: 1.12

Transcription factors associated with PdhR

Gene Symbol Gene ID Gene Info
pdhR
pdhR PdhR DNA-binding transcriptional dual regulator

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
pdhR0.956.3e-14Click!

Activity profile of PdhR motif

Sorted Z-values of PdhR motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
fecABCDE 20.02
fecD
fecE
fecB
fecC
fecA
ferric citrate ABC transporter - membrane subunit
ferric citrate ABC transporter - ATP binding subunit
ferric citrate ABC transporter - periplasmic binding protein
ferric citrate ABC transporter - membrane subunit
ferric citrate outer membrane porin FecA
ndh 16.68
ndh
NADH:quinone oxidoreductase II
pdhR-aceEF-lpd 14.91
pdhR
lpd
aceF
aceE
PdhR DNA-binding transcriptional dual regulator
lipoamide dehydrogenase
pyruvate dehydrogenase, E2 subunit
subunit of E1p component of pyruvate dehydrogenase complex
hemL 13.03
hemL
glutamate-1-semialdehyde aminotransferase
grcA 9.77
grcA
stress-induced alternate pyruvate formate-lyase subunit
cyoABCDE 8.37
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
mraZ-rsmH-ftsLI-murEF-mraY-murD-ftsW-murGC-ddlB-ftsQAZ-lpxC 1.37
murC
mraZ
ftsA
mraY
rsmH
ftsL
murD
murE
ftsI
murG
ftsW
murF
ftsQ
lpxC
ddlB
ftsZ
UDP-N-acetylmuramate-alanine ligase
MraZ DNA-binding transcriptional repressor
essential cell division protein FtsA
phospho-N-acetylmuramoyl-pentapeptide transferase
16S rRNA m4C1402 methyltransferase
essential cell division protein FtsL
UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase
UDP-N-acetylmuramoylalanyl-D-glutamate 2,6-diaminopimelate ligase
essential cell division protein FtsI; penicillin-binding protein 3
N-acetylglucosaminyl transferase
essential cell division protein FtsW; lipid II flippase
D-alanyl-D-alanine-adding enzyme
essential cell division protein FtsQ
UDP-3-O-acyl-N-acetylglucosamine deacetylase
D-alanine-D-alanine ligase B
essential cell division protein FtsZ

Network of associatons between targets according to the STRING database.

First level regulatory network of PdhR

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
6.3 25.1 GO:0019646 aerobic electron transport chain(GO:0019646)
5.0 14.9 GO:0035383 acyl-CoA metabolic process(GO:0006637) glycine decarboxylation via glycine cleavage system(GO:0019464) thioester metabolic process(GO:0035383)
2.9 20.0 GO:0072512 ferric iron transport(GO:0015682) trivalent inorganic cation transport(GO:0072512)
2.6 13.0 GO:0006782 protoporphyrinogen IX biosynthetic process(GO:0006782)
2.0 9.8 GO:0006567 threonine catabolic process(GO:0006567)
0.5 1.4 GO:0015835 peptidoglycan transport(GO:0015835)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
2.8 8.4 GO:0070069 cytochrome complex(GO:0070069)
1.7 20.0 GO:0055052 ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing(GO:0055052)
1.5 31.6 GO:1990204 oxidoreductase complex(GO:1990204)
0.1 1.4 GO:0032153 cell division site(GO:0032153)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
5.6 16.7 GO:0050136 NADH dehydrogenase (ubiquinone) activity(GO:0008137) NADH dehydrogenase (quinone) activity(GO:0050136)
3.0 14.9 GO:0031405 lipoic acid binding(GO:0031405)
2.9 20.0 GO:0015603 iron chelate transmembrane transporter activity(GO:0015603)
2.8 8.4 GO:0048039 ubiquinone binding(GO:0048039)
2.4 9.8 GO:0008861 formate C-acetyltransferase activity(GO:0008861)
0.8 13.0 GO:0016866 intramolecular transferase activity(GO:0016866)
0.5 1.4 GO:0008963 penicillin binding(GO:0008658) UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase activity(GO:0008759) phospho-N-acetylmuramoyl-pentapeptide-transferase activity(GO:0008963) peptidoglycan transporter activity(GO:0015647)