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

• Motif significance table
• Sample table
• Mean activities
• All promoters sorted by FOV

• Activity table
• Activity delta table
• Regulatory interactions
• Motifs sorted by significance
• Expression table
• Download the whole report

Gene Symbol	Gene ID	Gene Info
argR Links RegulonDB EcoCyc	argR	ArgR transcriptional dual regulator

Gene	Promoter	Pearson corr. coef.	P-value	Plot
argR		0.25	2.1e-01	Click!

Promoter	Log-likelihood	Transcript	Gene	Gene Info
artJ Show fit	6.23		artJ Links RegulonDB EcoCyc Show fit	L-arginine ABC transporter - periplasmic binding protein
argG Show fit	3.69		argG Links RegulonDB EcoCyc Show fit	argininosuccinate synthase
argCBH Show fit	3.53		argH Links RegulonDB EcoCyc Show fit argB Links RegulonDB EcoCyc Show fit argC Links RegulonDB EcoCyc Show fit	argininosuccinate lyase acetylglutamate kinase N-acetylglutamylphosphate reductase
argE Show fit	3.35		argE Links RegulonDB EcoCyc Show fit	acetylornithine deacetylase
artPIQM Show fit	3.22		artQ Links RegulonDB EcoCyc Show fit artP Links RegulonDB EcoCyc Show fit artI Links RegulonDB EcoCyc Show fit artM Links RegulonDB EcoCyc Show fit	L-arginine ABC transporter - membrane subunit L-arginine ABC transporter - ATP binding subunit periplasmic binding protein ArtI L-arginine ABC transporter - membrane subunit
carAB Show fit	3.06		carB Links RegulonDB EcoCyc Show fit carA Links RegulonDB EcoCyc Show fit	carbamoyl phosphate synthetase, β chain carbamoyl phosphate synthetase, α chain
gltBDF Show fit	2.81		gltB Links RegulonDB EcoCyc Show fit gltD Links RegulonDB EcoCyc Show fit gltF Links RegulonDB EcoCyc Show fit	glutamate synthase, large subunit glutamate synthase, small subunit periplasmic protein
argA Show fit	2.14		argA Links RegulonDB EcoCyc Show fit	N-acetylglutamate synthase
argI Show fit	1.86		argI Links RegulonDB EcoCyc Show fit	ornithine carbamoyltransferase chain I
hisJQMP Show fit	1.82		hisM Links RegulonDB EcoCyc Show fit hisP Links RegulonDB EcoCyc Show fit hisQ Links RegulonDB EcoCyc Show fit hisJ Links RegulonDB EcoCyc Show fit	lysine/arginine/ornithine ABC transporter / histidine ABC transporter - membrane subunit lysine / arginine / ornithine ABC transporter / histidine ABC transporter - ATP binding subunit lysine / arginine / ornithine ABC transporter / histidine ABC transporter - membrane subunit histidine ABC transporter - periplasmic binding protein
argD Show fit	1.59		argD Links RegulonDB EcoCyc Show fit	N-acetylornithine aminotransferase / N-succinyldiaminopimelate aminotransferase
argR Show fit	0.90		argR Links RegulonDB EcoCyc Show fit	ArgR transcriptional dual regulator
metY-rimP-nusA-infB-rbfA-truB-rpsO-pnp Show fit	0.55		metY Links RegulonDB EcoCyc Show fit rimP Links RegulonDB EcoCyc Show fit rpsO Links RegulonDB EcoCyc Show fit pnp Links RegulonDB EcoCyc Show fit rbfA Links RegulonDB EcoCyc Show fit infB Links RegulonDB EcoCyc Show fit nusA Links RegulonDB EcoCyc Show fit truB Links RegulonDB EcoCyc Show fit	tRNAfMet2 ribosome maturation factor RimP 30S ribosomal subunit protein S15 polynucleotide phosphorylase 30S ribosome binding factor protein chain initiation factor IF2 transcription termination/antitermination L factor tRNA pseudouridine 55 synthase
metY Show fit	0.38		metY Links RegulonDB EcoCyc Show fit	tRNAfMet2

View svg image
View png image

Gene overrepresentation in biological process category:

Log-likelihood per target	Total log-likelihood	Term	Description
2.8	11.3	GO:0090467	L-arginine import(GO:0043091) L-amino acid import(GO:0043092) arginine import(GO:0090467) L-arginine import across plasma membrane(GO:0097638) L-arginine import into cell(GO:1902765) L-arginine transmembrane transport(GO:1903400) arginine transmembrane transport(GO:1903826)
1.4	15.2	GO:0009084	glutamine family amino acid biosynthetic process(GO:0009084)
0.3	0.9	GO:0042150	plasmid recombination(GO:0042150)
0.2	0.5	GO:0031119	pseudouridine synthesis(GO:0001522) tRNA pseudouridine synthesis(GO:0031119) RNA 3'-end processing(GO:0031123)

Gene overrepresentation in cellular component category:

Log-likelihood per target	Total log-likelihood	Term	Description
0.3	3.2	GO:0055052	ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing(GO:0055052)
0.1	10.9	GO:0030288	outer membrane-bounded periplasmic space(GO:0030288)
0.1	3.1	GO:1902494	catalytic complex(GO:1902494)
0.0	0.5	GO:0015935	small ribosomal subunit(GO:0015935) cytosolic small ribosomal subunit(GO:0022627)
0.0	7.2	GO:0005737	cytoplasm(GO:0005737)

Gene overrepresentation in molecular function category:

Log-likelihood per target	Total log-likelihood	Term	Description
1.2	3.5	GO:0016842	amidine-lyase activity(GO:0016842)
1.1	3.4	GO:0050897	cobalt ion binding(GO:0050897)
1.1	3.2	GO:0005275	amine transmembrane transporter activity(GO:0005275)
0.8	11.1	GO:0016597	amino acid binding(GO:0016597)
0.6	1.9	GO:0016743	carboxyl- or carbamoyltransferase activity(GO:0016743)
0.5	2.8	GO:0016638	oxidoreductase activity, acting on the CH-NH2 group of donors(GO:0016638)
0.4	2.1	GO:0008080	N-acetyltransferase activity(GO:0008080)
0.2	0.5	GO:0004532	3'-5'-exoribonuclease activity(GO:0000175) exoribonuclease activity(GO:0004532) exoribonuclease activity, producing 5'-phosphomonoesters(GO:0016896)
0.1	3.7	GO:0016879	ligase activity, forming carbon-nitrogen bonds(GO:0016879)
0.0	0.9	GO:0000975	regulatory region DNA binding(GO:0000975) regulatory region nucleic acid binding(GO:0001067) transcription regulatory region DNA binding(GO:0044212)

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target	Total log-likelihood	Term	Description
0.2	0.5	REACTOME PURINE SALVAGE	Genes involved in Purine salvage