Environment and Gene Regulatory Influence Network (EGRIN) model for C. difficile 630

The Environment and Gene Regulatory Influence Network (EGRIN) model of C. difficile 630 was inferred using cMonkey2 and a compendium of 136 transcriptomes (retrieved from the Gene Expression Omnibus repository) with 4,070 sequence features including 35 rRNAs and 90 tRNAs . The C. difficile EGRIN model groups genes in subsets (406 modules in total), that are co-regulated in specific environments, and also identifies the associated, putative cis-acting gene regulatory elements (GREs), which represent potential TF binding locations. Transcriptome compendium included conditions: response to iron limitation, response to oxygen, in vivo vs in vitro growth, short term infection (0, 30, 60, 120 mins), response to commensals and host diet, transition from exponential to stationary phase, fur KO, codY KO, sporulation TF (and sigma factors) KOs.

Explore Regulatory Modules

Displaying 181 - 190 of 406

Candidate transcriptional regulators for each module were determined with a linear regression based approach (Inferelator) and by evaluating the statistical significance of the overlap (Hypergeometric) between modules and putative TF and alternative sigma factor regulons (CcpA, CodY, Fur, PrdR, SigB, SigD, SigE, SigF, SigG, SigH, SigK, Spo0A) compiled from available literature.

* Given that translation start was used to define the 3' end of putative promoters, some cis-regulatory motifs are likely to be ribosome binding sites (i.e., Shine-Dalgarno sequence). RBS is typically a six nucleotide sequence 5'-GGAGGA-3'.

Title	Gene Count	Motif 1 e-value	Motif 2 e-value	Residual	TF Influences
Module_146	14 CD630_29530 - Type: Gene Product:ABC-type transport system, iron-familyextracellular solute-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_06250 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_01670 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_31860 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_33650 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_27350 - cwp14 Type: Gene Product:Putative cell wall-binding protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_12100 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_28370 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_27020 - brnQ Type: Gene Product:Branched-chain amino acid transport system IIcarrier protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_04380 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_30840 - garK Type: Gene Product:Glycerate kinase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_31630 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_06640 - tcdC Type: Gene Product:Negative regulator of toxin gene expression \| Pathway: \| COG: Function unknown CD630_27950 - cwp11 Type: Gene Product:Cell wall binding protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis	0.0000000000028	`NA`	0.52	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_27320 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_32600 - phoU Type: Gene Product:Phosphate uptake regulator, PhoU \| Pathway: \| COG: Inorganic ion transport and metabolism TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_290	14 CD630_19921 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_20920 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_21270 - Type: Gene Product:Putative exported protein \| Pathway: \| COG: CD630_19430 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_31562 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_16750 - Type: Gene Product:Transcriptional regulator, hxlR family \| Pathway: \| COG: Transcription CD630_23050 - pilW Type: Gene Product:Type IV pilus protein \| Pathway: \| COG: Function unknown CD630_17110 - Type: Gene Product:Conserved hypothetical protein, UPF0145 family \| Pathway: \| COG: Function unknown CD630_14280 - Type: Gene Product:Transcriptional regulator, hxlR family \| Pathway: \| COG: Transcription CD630_31920 - cwp21 Type: Gene Product:Putative cell surface peptidase, M4 family \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_21330 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_10360 - cwp17 Type: Gene Product:Putative N-acetylmuramoyl-L-alanine amidase,autolysin \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_27980 - cwp9 Type: Gene Product:Cell wall binding protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_21320 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Transcription	0.01	`NA`	0.52	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_16750 - Type: Gene Product:Transcriptional regulator, hxlR family \| Pathway: \| COG: Transcription CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_20920 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_210	21 CD630_29780 - Type: Gene Product:Putative CRISPR-associated Cas3 family helicase \| Pathway: \| COG: Replication, recombination and repair CD630_18050 - scrB Type: Gene Product:Sucrose-6-phosphate hydrolase (Sucrase)(Invertase) \| Pathway: Glycan biosynthesis \| COG: Carbohydrate transport and metabolism CD630_18040 - scrR Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_01030 - truA1 Type: Gene Product:tRNA pseudouridine synthase A 1 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_05690 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Function unknown CD630_01020 - cbiQ Type: Gene Product:ABC-type transport system, cobalt-specificpermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_29770 - Type: Gene Product:Putative CRISPR-associated Cas4 family protein \| Pathway: \| COG: Replication, recombination and repair CD630_07860 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_07850 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Function unknown CD630_18060 - scrK Type: Gene Product:Fructokinase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_29760 - Type: Gene Product:Putative CRISPR-associated Cas1 family protein \| Pathway: \| COG: Replication, recombination and repair CD630_29820 - Type: Gene Product:Putative CRISPR-associated Cas6 family protein \| Pathway: \| COG: Replication, recombination and repair CD630_05700 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Function unknown CD630_29790 - Type: Gene Product:Putative CRISPR-associated Cas5 family protein \| Pathway: \| COG: Replication, recombination and repair CD630_29750 - Type: Gene Product:Putative CRISPR-associated Cas2 family protein \| Pathway: \| COG: Replication, recombination and repair CD630_24300 - Type: Gene Product:Transcriptional regulator, IclR family \| Pathway: \| COG: Transcription CD630_01000 - cbiO1 Type: Gene Product:ABC-type transport system, cobalt-specificATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_29810 - Type: Gene Product:Putative CRISPR-associated protein, CXXC-CXXC \| Pathway: \| COG: Replication, recombination and repair CD630_12880 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_01010 - cbiO2 Type: Gene Product:ABC-type transport system, cobalt-specificATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_29800 - Type: Gene Product:Putative CRISPR-associated autoregulator DevRfamily protein protein \| Pathway: \| COG: Replication, recombination and repair	0.03	`NA`	0.52	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_31900 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_10640 - ccpA Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription
Module_195	15 CD630_07560 - Type: Gene Product:Nitroreductase \| Pathway: \| COG: Energy production and conversion CD630_31461 - Type: Gene Product:Fragment of putative transposase, IS4 family(C-terminal region) \| Pathway: \| COG: Replication, recombination and repair CD630_13400 - Type: Gene Product:Putative galactose-1-phosphateuridylyltransferase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_15380 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_07550 - pilJ Type: Gene Product:Type IV pilus protein \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_18310 - Type: Gene Product:Putative cation (Mg2+ and Co2+)transport-related, membrane protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_23020 - tlpB Type: Gene Product:Fragment of transposase-like protein B(C-terminal region) \| Pathway: \| COG: Replication, recombination and repair CD630_05630 - Type: Gene Product:Putative iron-sulfur cluster-binding protein \| Pathway: \| COG: Energy production and conversion CD630_13580 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_05640 - Type: Gene Product:putative ATP-dependent protease \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_18410 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_18420 - Type: Gene Product:Conserved hypothetical protein, DUF218 family \| Pathway: \| COG: Function unknown CD630_18400 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_05620 - Type: Gene Product:Putative RusA-like endodeoxyribonuclease \| Pathway: \| COG: Function unknown CD630_13570 - Type: Gene Product:Putative peptidyl-prolyl isomerase \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones	`NA`	`NA`	0.52	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_06930 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_34990 - spoVT Type: Gene Product:Stage V sporulation protein T \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_69	20 CD630_13400 - Type: Gene Product:Putative galactose-1-phosphateuridylyltransferase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_22940 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_32850 - pgi Type: Gene Product:Glucose-6-phosphate isomerase (GPI)(Phosphoglucose isomerase) (PGI) (Phosphohexose isomerase)(PHI) \| Pathway: Carbohydrate biosynthesis \| COG: Carbohydrate transport and metabolism CD630_07870 - Type: Gene Product:Putative metal-binding protein \| Pathway: \| COG: Function unknown CD630_36770 - Type: Gene Product:Putative SpoIIIJ-associated RNA/ssDNA-bindingprotein Jag \| Pathway: \| COG: Function unknown CD630_36781 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_12380 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_07880 - Type: Gene Product:Putative GTP-binding protein, HflX type \| Pathway: \| COG: Function unknown CD630_08520 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_08920 - cspA Type: Gene Product:Cold shock protein \| Pathway: \| COG: Transcription CD630_35170 - purR Type: Gene Product:Transcriptional regulator, Purine operonrepressor \| Pathway: \| COG: Transcription CD630_19850 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_35790 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_36760 - mnmE Type: Gene Product:tRNA modification GTPase MnmE \| Pathway: \| COG: Function unknown CD630_36800 - rpmH Type: Gene Product:50S ribosomal protein L34 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_36780 - oxaA1 Type: Gene Product:Sporulation membrane protein SpoIIIJ \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_35780 - Type: Gene Product:Resolvase \| Pathway: \| COG: Replication, recombination and repair CD630_36790 - rnpA Type: Gene Product:Ribonuclease P protein component (RNaseP protein)(RNase P protein) (Protein C5) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_24730 - rpsT Type: Gene Product:30S ribosomal protein S20 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_36750 - mnmG Type: Gene Product:tRNA uridine 5-carboxymethylaminomethylmodification enzyme MnmG (Glucose-inhibited divisionprotein A) \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning	0.00000094	0.00027	0.52	Inferelator: 4 Hypergeometric: 0 TF Influences from Inferelator CD630_05590 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_06480 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_23900 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_211	23 CD630_12170 - Type: Gene Product:Putative glycosyl transferase, family 2 \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_28050 - ruvB Type: Gene Product:Holliday junction ATP-dependent DNA helicaseRuvB \| Pathway: \| COG: Replication, recombination and repair CD630_28070 - ruvC Type: Gene Product:Crossover junction endodeoxyribonuclease RuvC(Holliday junction nuclease RuvC) (Holliday junctionresolvase RuvC) \| Pathway: \| COG: Replication, recombination and repair CD630_12150 - Type: Gene Product:Putative pyrophosphokinase, DUF115 family \| Pathway: \| COG: Function unknown CD630_12230 - drm Type: Gene Product:Phosphopentomutase (Phosphodeoxyribomutase) \| Pathway: Metabolic intermediate biosynthesis \| COG: Carbohydrate transport and metabolism CD630_12250 - pdp Type: Gene Product:Pyrimidine-nucleoside phosphorylase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_12210 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_12190 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_12310 - Type: Gene Product:Putative site-specific recombinase \| Pathway: \| COG: Replication, recombination and repair CD630_22040 - Type: Gene Product:Putative esterase \| Pathway: \| COG: Function unknown CD630_22060 - aldH Type: Gene Product:Aldehyde dehydrogenase (aldehyde:NAD+oxidoreductase) \| Pathway: \| COG: Energy production and conversion CD630_28060 - ruvA Type: Gene Product:Holliday junction ATP-dependent DNA helicaseRuvA \| Pathway: \| COG: Replication, recombination and repair CD630_26460 - ftsZ Type: Gene Product:Cell division protein FtsZ \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_12160 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_14010 - Type: Gene Product:Putative isochorismatase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_12300 - Type: Gene Product:RNA polymerase sigma-K factor SigK (Part 2) \| Pathway: \| COG: Transcription, Transcription CD630_12240 - pupG Type: Gene Product:Purine nucleoside phosphorylase \| Pathway: Purine metabolism \| COG: Nucleotide transport and metabolism CD630_12180 - Type: Gene Product:Putative glycosyl transferase \| Pathway: \| COG: Function unknown CD630_12200 - nudF Type: Gene Product:Putative hydrolase, NUDIX family \| Pathway: \| COG: Nucleotide transport and metabolism CD630_12220 - Type: Gene Product:Putative phage integrase site-specificrecombinase XerD-like \| Pathway: \| COG: Replication, recombination and repair CD630_22050 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_22290 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_14020 - glpQ Type: Gene Product:Glycerophosphoryl diester phosphodiesterase \| Pathway: \| COG: Energy production and conversion	0.000011	`NA`	0.52	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_23900 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_12140 - spo0A Type: Gene Product:Stage 0 sporulation protein A \| Pathway: \| COG: Signal transduction mechanisms
Module_373	18 CD630_20840 - Type: Gene Product:Putative peptidase, M20 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_20850 - dpaL Type: Gene Product:Diaminopropionate ammonia-lyase \| Pathway: \| COG: Amino acid transport and metabolism CD630_28350 - abgT Type: Gene Product:Aminobenzoyl-glutamate transport protein \| Pathway: \| COG: Coenzyme transport and metabolism CD630_30660 - xylR Type: Gene Product:Transcriptional regulator, Xylose repressor \| Pathway: \| COG: Transcription CD630_28170 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding/permease protein \| Pathway: \| COG: Defense mechanisms CD630_28340 - glyA Type: Gene Product:Serine hydroxymethyltransferase (Serinemethylase) (SHMT) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_28360 - Type: Gene Product:Putative peptidase, M20D family \| Pathway: \| COG: Amino acid transport and metabolism CD630_31521 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_31520 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_31530 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_04500 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Transcription CD630_10160 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_00450 - Type: Gene Product:Putative sugar-phosphate aldolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30640 - xylA Type: Gene Product:Xylose isomerase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_31510 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_28180 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding/permease protein \| Pathway: \| COG: Defense mechanisms CD630_30650 - xylB Type: Gene Product:Xylulose kinase \| Pathway: \| COG: Carbohydrate transport and metabolism	0.000000015	0.00000086	0.52	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_02760 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_39	22 CD630_36360 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_36361 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_04790 - spaE Type: Gene Product:ABC-type transport system,lantibiotic/multidrug-family permease \| Pathway: \| COG: Function unknown CD630_22990 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_11261 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_27130 - ldtcd2 Type: Gene Product:L,D-transpeptidases \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_04850 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_27150 - gtaB Type: Gene Product:UTP--glucose-1-phosphate uridylyltransferase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_04620 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_04810 - spaR Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_04640 - Type: Gene Product:Putative beta-lactamase-like hydrolase \| Pathway: \| COG: Function unknown CD630_36350 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_36370 - Type: Gene Product:Putative NADPH-dependent FMN reductase \| Pathway: \| COG: Function unknown CD630_11270 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_04780 - spaF Type: Gene Product:ABC-type transport system,lantibiotic/multidrug-family ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_36380 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_27140 - galE Type: Gene Product:UDP-glucose 4-epimerase \| Pathway: Carbohydrate metabolism \| COG: Cell wall/membrane/envelope biogenesis CD630_04630 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_04800 - spaG Type: Gene Product:ABC-type transport system,lantibiotic/multidrug-family permease \| Pathway: \| COG: Function unknown CD630_04860 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_04820 - spaK Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_04610 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms	0.5	`NA`	0.51	Inferelator: 2 Hypergeometric: 2 TF Influences from Inferelator CD630_01710 - rex Type: Gene Product:Transcriptional regulator, Redox-sensingrepressor Rex \| Pathway: \| COG: Transcription CD630_02760 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_07720 - sigF Type: Gene Product:RNA polymerase sigma-F factor \| Pathway: \| COG: Transcription CD630_26430 - sigE Type: Gene Product:RNA polymerase sigma-E factor \| Pathway: \| COG: Transcription
Module_24	20 CD630_19840 - Type: Gene Product:Putative hydrolase, NUDIX family \| Pathway: \| COG: Replication, recombination and repair CD630_30850 - mngB Type: Gene Product:Alpha-mannosidase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_05820 - Type: Gene Product:Putative pyruvate phosphate dikinase,PEP/pyruvate-binding \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30320 - Type: Gene Product:Putative pyridoxal phosphate-dependenttransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_03020 - rbsC Type: Gene Product:ABC-type transport system, ribose-specificpermease \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_02990 - rbsK Type: Gene Product:Ribokinase, pfkB family \| Pathway: Carbohydrate metabolism \| COG: Carbohydrate transport and metabolism CD630_31650 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Replication, recombination and repair CD630_31670 - Type: Gene Product:Putative phosphatidylethanolamine-bindingregulatory protein \| Pathway: \| COG: Function unknown CD630_03030 - argE Type: Gene Product:Acetylornithine deacetylase ArgE \| Pathway: \| COG: Amino acid transport and metabolism CD630_03000 - rbsB Type: Gene Product:ABC-type transport system, ribose-specificextracellular solute-binding protein \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_05890 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_30870 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription CD630_t0450 - tRNA-Val Type: Gene Product: \| Pathway: \| COG: CD630_30860 - mngA Type: Gene Product:PTS system, 2-O-a-mannosyl-D-glycerate-specificIIABC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_03010 - rbsA Type: Gene Product:ABC-type transport system, ribose-specificATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_05810 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_03040 - Type: Gene Product:Conserved hypothetical protein, DUF1355 family \| Pathway: \| COG: Function unknown CD630_05900 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_23861 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_02980 - rbsR Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription	0.000009	`NA`	0.51	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_02980 - rbsR Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_30870 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_167	28 CD630_19260 - eutR Type: Gene Product:Fragment of transcription regulator, AraC family(C-terminal region) \| Pathway: \| COG: Transcription CD630_21210 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_25980 - Type: Gene Product:Putative oligosaccharide deacetylase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_32570 - Type: Gene Product:Putative polysaccharide deacetylase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_05560 - Type: Gene Product:Putative sugar isomerase / endonuclease \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_05520 - prsW Type: Gene Product:Site-1 protease \| Pathway: \| COG: Function unknown CD630_05540 - sip2 Type: Gene Product:Signal peptidase type I \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_05500 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_32580 - Type: Gene Product:Iron hydrogenase \| Pathway: \| COG: Energy production and conversion CD630_34880 - gtaB Type: Gene Product:UTP--glucose-1-phosphate uridylyltransferase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_23730 - Type: Gene Product:Putative CstA-like carbon starvation protein \| Pathway: \| COG: Signal transduction mechanisms CD630_07120 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_33120 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_15750 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_27190 - Type: Gene Product:Putative polysaccharide deacetylase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_24580 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_05570 - Type: Gene Product:Putative uridine kinase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_25990 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Transcription CD630_05550 - sip2 Type: Gene Product:Signal peptidase type I \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_14300 - pdaA Type: Gene Product:Exported N-acetylmuramic acid deacetylase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_05510 - sleC Type: Gene Product:Spore exo-acting lytic transglycosylase \| Pathway: \| COG: Function unknown CD630_05530 - Type: Gene Product:Putative RNA methyltransferase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_14630 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_30070 - Type: Gene Product:Putative L,D-transpeptidases \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_23052 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_15790 - Type: Gene Product:Two-component sensor histidine kinase,sporulation-associated spo0A \| Pathway: \| COG: Signal transduction mechanisms CD630_22520 - Type: Gene Product:Glutamate 2,3-aminomutase \| Pathway: \| COG: Amino acid transport and metabolism CD630_34890 - Type: Gene Product:Putative oligoendopeptidase F, peptidase M3Bfamily \| Pathway: \| COG: Amino acid transport and metabolism	0.00000029	`NA`	0.51	Inferelator: 5 Hypergeometric: 1 TF Influences from Inferelator CD630_06290 - Type: Gene Product:Transcriptional regulator, Crp family \| Pathway: \| COG: Transcription CD630_25990 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Transcription CD630_26420 - sigG Type: Gene Product:RNA polymerase sigma-G factor \| Pathway: \| COG: Transcription CD630_26430 - sigE Type: Gene Product:RNA polymerase sigma-E factor \| Pathway: \| COG: Transcription CD630_34990 - spoVT Type: Gene Product:Stage V sporulation protein T \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_12140 - spo0A Type: Gene Product:Stage 0 sporulation protein A \| Pathway: \| COG: Signal transduction mechanisms