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 91 - 100 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_113	11 CD630_21170 - trxB Type: Gene Product:Thioredoxin reductase \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_25400 - Type: Gene Product:Coenzyme A disulfide reductase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_30360 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Amino acid transport and metabolism CD630_08670 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_26691 - Type: Gene Product:Putative Na(+)/H(+) antiporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_17780 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_18990 - Type: Gene Product:Putative dCMP deaminase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_09740 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_17770 - Type: Gene Product:Putative arsenate reductase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_26120 - Type: Gene Product:Putative amino acid permease \| Pathway: \| COG: Amino acid transport and metabolism CD630_17452 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG:	4	`NA`	0.57	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_16930 - Type: Gene Product:Putative dinitrogenase iron-molybdenum cofactor \| Pathway: \| COG: Function unknown CD630_19100 - eutV Type: Gene Product:Two-component response regulator, Ethanolaminespecific \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_130	28 CD630_00010 - dnaA Type: Gene Product:Chromosomal replication initiator protein \| Pathway: \| COG: Replication, recombination and repair CD630_00110 - sigB Type: Gene Product:RNA polymerase sigma-B factor \| Pathway: \| COG: Transcription CD630_00030 - Type: Gene Product:Putative RNA-binding mediating protein \| Pathway: \| COG: Function unknown CD630_00070 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_00050 - gyrB Type: Gene Product:DNA gyrase subunit B \| Pathway: \| COG: Replication, recombination and repair CD630_17460 - gltC Type: Gene Product:Sodium/glutamate symporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_00090 - rsbV Type: Gene Product:Anti-anti-sigma factor \| Pathway: \| COG: Signal transduction mechanisms CD630_24910 - pmi Type: Gene Product:Mannose-6-phosphate isomerase (Phosphomannoseisomerase) (PMI) (Phosphohexomutase) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_21070 - Type: Gene Product:Xanthine/uracil/thiamine/ascorbate permeasefamily protein \| Pathway: \| COG: Function unknown CD630_16900 - trxA Type: Gene Product:Thioredoxin \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_24820 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Function unknown CD630_18000 - terD Type: Gene Product:Tellurium resistance protein \| Pathway: \| COG: Signal transduction mechanisms CD630_26160 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_00040 - recF Type: Gene Product:DNA replication and repair protein RecF \| Pathway: \| COG: Replication, recombination and repair CD630_24830 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Coenzyme transport and metabolism CD630_00020 - dnaN Type: Gene Product:DNA polymerase III subunit beta \| Pathway: \| COG: Replication, recombination and repair CD630_32290 - dapB2 Type: Gene Product:Dihydrodipicolinate reductase 2 (DHPR 2) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_00060 - gyrA Type: Gene Product:DNA gyrase subunit A \| Pathway: \| COG: Replication, recombination and repair CD630_04030 - fba Type: Gene Product:Fructose-1,6-bisphosphate aldolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_24900 - Type: Gene Product:Putative peptidase, M20A family \| Pathway: \| COG: Amino acid transport and metabolism CD630_17451 - feoA Type: Gene Product:Ferrous iron transport protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_01070 - aspC Type: Gene Product:Aspartate aminotransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_24411 - Type: Gene Product:PhoH-like protein \| Pathway: \| COG: Signal transduction mechanisms CD630_28290 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Amino acid transport and metabolism, Carbohydrate transport and metabolism CD630_24810 - ung Type: Gene Product:Uracil-DNA glycosylase (UDG) \| Pathway: \| COG: Replication, recombination and repair CD630_20590 - glnS Type: Gene Product:Glutaminyl-tRNA synthetase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_13390 - aspB Type: Gene Product:Aspartate aminotransferase (AspAT) (TransaminaseA) \| Pathway: \| COG: Amino acid transport and metabolism CD630_16910 - trxB Type: Gene Product:Putative thioredoxin-disulfide reductase \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones	2.1e-32	6.4	0.57	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_22200 - Type: Gene Product:Putative cyclic nucleotides-binding protein \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_313	20 CD630_29460 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_25320 - Type: Gene Product:Aminotransferase, alanine--glyoxylatetransaminase \| Pathway: \| COG: Amino acid transport and metabolism CD630_14310 - Type: Gene Product:Putative helicase, DinG family \| Pathway: \| COG: Replication, recombination and repair CD630_29470 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_29471 - Type: Gene Product:Hypothetical protein \| Pathway: \| COG: CD630_25300 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_00340 - Type: Gene Product:Putative xylose transporter, sodium:galactosidesymporter family \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_29430 - Type: Gene Product:Putative phage replication protein \| Pathway: \| COG: Replication, recombination and repair CD630_25310 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_29450 - Type: Gene Product:Putative bacteriophage resistance protein \| Pathway: \| COG: Function unknown CD630_25290 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_29440 - Type: Gene Product:Putative phage essential recombination functionprotein \| Pathway: \| COG: Replication, recombination and repair CD630_29520 - Type: Gene Product:Putative phage site-specific integrase \| Pathway: \| COG: Replication, recombination and repair CD630_29490 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_29420 - Type: Gene Product:Putative phage resolvase/integrase \| Pathway: \| COG: CD630_29480 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Transcription CD630_00330 - Type: Gene Product:Putative glycoside hydrolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_14320 - Type: Gene Product:Putative ribonuclease \| Pathway: \| COG: Function unknown CD630_00320 - Type: Gene Product:Putative beta-glucosidase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_29500 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription	0.06	`NA`	0.57	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_25300 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_187	27 CD630_14880 - Type: Gene Product:Transcriptional regulator, DeoR family \| Pathway: \| COG: Transcription CD630_26760 - thlA2 Type: Gene Product:Acetoacetyl-CoA thiolase 2 \| Pathway: \| COG: Lipid transport and metabolism CD630_02330 - fliW Type: Gene Product:Flagellar assembly factor FliW \| Pathway: \| COG: Signal transduction mechanisms CD630_02370 - fliD Type: Gene Product:Flagellar hook-associated protein 2 FliD (orHAP2) \| Pathway: \| COG: Cell motility CD630_02310 - flgK Type: Gene Product:Flagellar hook-associated protein FlgK (or HAP1) \| Pathway: \| COG: Cell motility CD630_19520 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_02350 - fliS1 Type: Gene Product:Flagellar protein FliS1 \| Pathway: \| COG: Cell motility CD630_02270 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_26790 - bdhA Type: Gene Product:3-hydroxybutyrate dehydrogenase \| Pathway: \| COG: Function unknown CD630_02780 - Type: Gene Product:Transcriptional regulator, hxlR family \| Pathway: \| COG: Transcription CD630_02280 - fliN Type: Gene Product:Flagellar motor switch protein FliN \| Pathway: \| COG: Cell motility CD630_02380 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_26770 - scoA Type: Gene Product:Succinyl CoA:3-oxoacid CoA-transferase subunit A \| Pathway: \| COG: Lipid transport and metabolism CD630_14870 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_13830 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_02320 - flgL Type: Gene Product:Flagellar hook-associated protein FlgL (or HAP3) \| Pathway: \| COG: Cell motility CD630_07370 - hisK Type: Gene Product:Histidinol-phosphatase (HolPase) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_19530 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_02300 - Type: Gene Product:Putative flagellar biosynthesis protein \| Pathway: \| COG: Function unknown CD630_02260 - Type: Gene Product:Putative lytic transglycosylase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_02340 - csrA Type: Gene Product:Carbon storage regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_02360 - fliS2 Type: Gene Product:Flagellar protein FliS2 \| Pathway: \| COG: Cell motility CD630_02790 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_26800 - Type: Gene Product:Putative permease \| Pathway: \| COG: Amino acid transport and metabolism, Carbohydrate transport and metabolism CD630_02290 - flgM Type: Gene Product:Anti-sigma factor repressor of sigma(D)-dependenttranscription \| Pathway: \| COG: CD630_26780 - scoB Type: Gene Product:Succinyl CoA:3-oxoacid CoA-transferase subunit B \| Pathway: \| COG: Lipid transport and metabolism CD630_02390 - fliC Type: Gene Product:Flagellin C \| Pathway: \| COG: Cell motility	0.01	0.04	0.57	Inferelator: 0 Hypergeometric: 1 TF Influences from Inferelator `No TF influences from Inferelator` TF Influences from Hypergeometric Test CD630_02660 - sigD Type: Gene Product:RNA polymerase sigma-28 factor for flagellaroperon \| Pathway: \| COG: Transcription
Module_299	20 CD630_28090 - Type: Gene Product:Conserved hypothetical protein, DUF1540 family \| Pathway: \| COG: Function unknown CD630_29150 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_29170 - Type: Gene Product:Putative scaffold protein \| Pathway: \| COG: Function unknown CD630_28970 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_03110 - GerG Type: Gene Product:Germination regulator \| Pathway: \| COG: CD630_29000 - Type: Gene Product:Putative phage tail protein \| Pathway: \| COG: Function unknown CD630_29010 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29030 - Type: Gene Product:Putative phage tail protein \| Pathway: \| COG: Function unknown CD630_10633 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_29140 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29120 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_28980 - Type: Gene Product:Putative phage tail fiber protein \| Pathway: \| COG: Function unknown CD630_29020 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29050 - Type: Gene Product:Putative phage tail tape measure protein \| Pathway: \| COG: Function unknown CD630_10632 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_28080 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_29040 - Type: Gene Product:Putative phage cell wall hydrolase \| Pathway: \| COG: Function unknown CD630_29090 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29060 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_29080 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown	0	`NA`	0.57	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator 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
Module_37	29 CD630_32470 - prdC Type: Gene Product:Putative electron transfer protein \| Pathway: \| COG: Energy production and conversion CD630_32530 - folC Type: Gene Product:Folylpolyglutamate synthase \| Pathway: \| COG: Coenzyme transport and metabolism CD630_24590 - Type: Gene Product:Putative glucokinase, ROK family \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_28700 - kdgT1 Type: Gene Product:2-keto-3-deoxygluconate permease 1 \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_28720 - uxaA Type: Gene Product:Fragment of C-terminal D-galactatedehydratase/Altronate hydrolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_13560 - Type: Gene Product:Putative CBS domain-containing protein \| Pathway: \| COG: Function unknown CD630_14600 - Type: Gene Product:Putative phosphohydrolase, HD superfamily \| Pathway: \| COG: Function unknown CD630_08000 - crt1 Type: Gene Product:3-hydroxybutyryl-CoA dehydratase (Crotonase) \| Pathway: \| COG: Lipid transport and metabolism CD630_22770 - Type: Gene Product:Class II aldolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_08430 - Type: Gene Product:Putative glycosyl transferase, group 1 \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_24110 - Type: Gene Product:Putative positive regulator of gluconeogenesis;putative phosphotransferase \| Pathway: \| COG: Function unknown CD630_35150 - glmU Type: Gene Product:Bifunctional protein GlmU [Includes:UDP-N-acetylglucosamine pyrophosphorylase ;Glucosamine-1-phosphate N-acetyltransferase] \| Pathway: Nucleotide-sugar biosynthesis \| COG: Cell wall/membrane/envelope biogenesis CD630_22160 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_22790 - Type: Gene Product:Putative sugar-phosphate dehydrogenase \| Pathway: \| COG: Amino acid transport and metabolism CD630_32540 - Type: Gene Product:Putative peptidase, S8 or S52 family \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_24580 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_28710 - uxaA Type: Gene Product:Fragment of N-terminal carbohydrate hydrolase,SAF domain \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_08600 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_17690 - Type: Gene Product:Putative CoA enzyme activase \| Pathway: \| COG: Lipid transport and metabolism CD630_08440 - cwp25 Type: Gene Product:Putative cell wall-binding protein \| Pathway: \| COG: Function unknown CD630_14630 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_08010 - Type: Gene Product:Putative permease, divalent anion symporterfamily \| Pathway: \| COG: Amino acid transport and metabolism, Carbohydrate transport and metabolism CD630_08400 - Type: Gene Product:Putative isomerase/hydrolase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_08420 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_24100 - ppdK Type: Gene Product:Pyruvate phosphate dikinase (ATP:pyruvate,phosphate phosphotransferase) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_08650 - Type: Gene Product:Putative ADP-ribose binding protein \| Pathway: \| COG: Function unknown CD630_22780 - araD Type: Gene Product:L-ribulose-5-phosphate 4-epimerase(Phosphoribulose isomerase) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_35140 - prs Type: Gene Product:Ribose-phosphate pyrophosphokinase \| Pathway: Metabolic intermediate biosynthesis \| COG: Nucleotide transport and metabolism CD630_24120 - Type: Gene Product:Putative negative regulator of gluconeogenesis \| Pathway: \| COG: Transcription	0.0000000000047	0.00011	0.57	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_24120 - Type: Gene Product:Putative negative regulator of gluconeogenesis \| Pathway: \| COG: Transcription CD630_35440 - Type: Gene Product:Transcriptional regulator, AsnC/Lrp family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_135	23 CD630_28130 - garR Type: Gene Product:Tartronate semialdehyde reductase \| Pathway: \| COG: Lipid transport and metabolism CD630_02500 - fliH Type: Gene Product:Flagellar assembly protein FliH \| Pathway: \| COG: Cell motility CD630_33230 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_26170 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_06730 - Type: Gene Product:Putative methyltransferase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_02450 - flgB Type: Gene Product:Flagellar basal-body rod protein FlgB \| Pathway: \| COG: Cell motility CD630_19480 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Defense mechanisms CD630_16800 - Type: Gene Product:Putative FMN-binding protein \| Pathway: \| COG: Function unknown CD630_16790 - Type: Gene Product:Putative flavodoxin \| Pathway: \| COG: Coenzyme transport and metabolism CD630_33250 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Energy production and conversion CD630_33880 - Type: Gene Product:Putative replication initiation factorTn916-like, CTn7-Orf27 \| Pathway: \| COG: Transcription CD630_19470 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_28120 - Type: Gene Product:Putative gluconate permease \| Pathway: \| COG: Amino acid transport and metabolism, Carbohydrate transport and metabolism CD630_17670 - gapB Type: Gene Product:Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_01880 - Type: Gene Product:Putative ketopantoate reductase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_02550 - flgE Type: Gene Product:Flagellar hook protein FlgE (Distal rod protein) \| Pathway: \| COG: Cell motility CD630_08090 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_28110 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_02590 - fliZ Type: Gene Product:Flagellar protein FliZ \| Pathway: \| COG: Cell motility CD630_32201 - Type: Gene Product:Small acid-soluble spore protein \| Pathway: \| COG: Function unknown CD630_32200 - Type: Gene Product:Putative methyltransferase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_19460 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_16810 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription	0.00000000085	0.64	0.57	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_25	29 CD630_12480 - rnc Type: Gene Product:ribonuclease III \| Pathway: \| COG: Transcription CD630_31140 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_12520 - ffh Type: Gene Product:Signal recognition particle protein \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_12560 - trmD Type: Gene Product:tRNA (guanine-N(1)-)-methyltransferase(M1G-methyltransferase) (tRNA [GM37] methyltransferase ) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_12500 - smc Type: Gene Product:Structural maintenance chromosome protein SMC \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_12460 - efp Type: Gene Product:Elongation factor P (EF-P) \| Pathway: Protein biosynthesis \| COG: Translation, ribosomal structure and biogenesis CD630_12540 - Type: Gene Product:Putative RNA-binding protein \| Pathway: \| COG: Function unknown CD630_31120 - Type: Gene Product:Putative peptidase, M20D family \| Pathway: \| COG: Amino acid transport and metabolism CD630_31960 - Type: Gene Product:Putative penicillin-binding protein \| Pathway: \| COG: Defense mechanisms CD630_20190 - Type: Gene Product:Transporter drug resistance, Major FacilitatorSuperfamily (MFS) \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_31940 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_08620 - Type: Gene Product:PTS system, lactose/cellobiose-family IICmembrane component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_32620 - pstA Type: Gene Product:ABC-type transport system, phosphate-specificpermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_32600 - phoU Type: Gene Product:Phosphate uptake regulator, PhoU \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_12530 - rpsP Type: Gene Product:30S ribosomal protein S16 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_31980 - cme Type: Gene Product:Multidrug resistance protein Cme; Transporter,Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_31130 - Type: Gene Product:Putative aminobenzoyl-glutamate utilizationprotein B \| Pathway: \| COG: Amino acid transport and metabolism CD630_12470 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_12660 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_12511 - Type: Gene Product:Putative DNA-binding regulator \| Pathway: \| COG: Function unknown CD630_12510 - ftsY Type: Gene Product:signal recognition particle receptor \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_12550 - rimM Type: Gene Product:16S rRNA processing protein RimM \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_12570 - rplS Type: Gene Product:50S ribosomal protein L19 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_31970 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_12680 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_32610 - pstB Type: Gene Product:ABC-type transport system, phosphate-specificATP-binding \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_31950 - Type: Gene Product:Putative UvrABC system protein A 2 (UvrA protein2) (Excinuclease ABC subunit A 2) \| Pathway: \| COG: Replication, recombination and repair CD630_32630 - pstC Type: Gene Product:ABC-type transport system, phosphate-specificpermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_20180 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription	0.000001	`NA`	0.56	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_24120 - Type: Gene Product:Putative negative regulator of gluconeogenesis \| Pathway: \| COG: Transcription CD630_36390 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_239	21 CD630_02760 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_32110 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_07510 - Type: Gene Product:ABC-type transport system, aminoacid-familypermease \| Pathway: \| COG: Amino acid transport and metabolism CD630_06180 - Type: Gene Product:Transcriptional regulator, LytR family \| Pathway: \| COG: Transcription, Signal transduction mechanisms CD630_t0020 - tRNA-Ser Type: Gene Product: \| Pathway: \| COG: CD630_23280 - Type: Gene Product:Sigma-54 dpendent regulator, PTS fructose family \| Pathway: \| COG: Signal transduction mechanisms CD630_11660 - hom1 Type: Gene Product:Homoserine dehydrogenase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_36450 - licC Type: Gene Product:PTS system, lichenan-specific IIC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_06170 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_17250 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_28630 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_17240 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_07500 - Type: Gene Product:ABC-type transport system, aminoacid-familyextracellular solute-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_19890 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_32090 - Type: Gene Product:Transcriptional regulator, PadR family \| Pathway: \| COG: Transcription CD630_02830 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Signal transduction mechanisms CD630_32100 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_06641 - cdd1 Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_07520 - Type: Gene Product:ABC-type transport system, aminoacid-familyATP-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_21250 - Type: Gene Product:Putative acetyltransferase \| Pathway: \| COG: Function unknown CD630_01590 - Type: Gene Product:Putative enzyme, glyoxalase family \| Pathway: \| COG: Amino acid transport and metabolism	0.0000000028	`NA`	0.56	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_02760 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_32800 - Type: Gene Product:Sigma-54 dpendent regulator, PTS fructose family \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_338	24 CD630_32260 - dapB1 Type: Gene Product:Dihydrodipicolinate reductase 1 (DHPR 1) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_32240 - asd Type: Gene Product:Aspartate-semialdehyde dehydrogenase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_36470 - licA Type: Gene Product:PTS system, lichenan-specific IIA component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_06940 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_21080 - Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_02940 - Type: Gene Product:ABC-type transport system,bacitracin/multidrug-family permease \| Pathway: \| COG: Function unknown CD630_15020 - deoC Type: Gene Product:Deoxyribose-phosphate aldolase(Phosphodeoxyriboaldolase) (Deoxyriboaldolase) (DERA) \| Pathway: Carbohydrate degradation \| COG: Nucleotide transport and metabolism CD630_15740 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_32720 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_30020 - uxaA Type: Gene Product:D-galactate dehydratase/Altronate hydrolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30000 - dapA1 Type: Gene Product:Dihydrodipicolinate synthase 1 \| Pathway: \| COG: Amino acid transport and metabolism CD630_32250 - dapA3 Type: Gene Product:Dihydrodipicolinate synthase 3 \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_14390 - Type: Gene Product:Putative transporter, LrgA family \| Pathway: \| COG: Function unknown CD630_32270 - dapH Type: Gene Product:2,3,4,5-tetrahydropyridine-2,6-dicarboxylateN-acetyltransferase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_31660 - Type: Gene Product:Transcriptional regulator, hxlR family \| Pathway: \| COG: Transcription CD630_36480 - licB Type: Gene Product:PTS system, lichenan-specific IIB component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_06930 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_14420 - Type: Gene Product:Putative MORN repeat-containing protein \| Pathway: \| COG: Function unknown CD630_21090 - Type: Gene Product:Putative anion:Na+ symporter \| Pathway: \| COG: Function unknown CD630_14400 - Type: Gene Product:Putative transporter, LrgB family \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_02930 - Type: Gene Product:ABC-type transport system,bacitracin/multidrug-family ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_30010 - Type: Gene Product:Putative hydrolase/isomerase/hydratase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_32710 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_31930 - Type: Gene Product:Putative phage-related protein \| Pathway: \| COG: Function unknown	0.00000000000012	0.36	0.56	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`