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 201 - 210 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_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
Module_330	18 CD630_15660 - ilvB Type: Gene Product:Acetolactate synthase large subunit \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_14760 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_28490 - phnXW Type: Gene Product:Bifunctional phosphonoacetaldehydehydrolase/aminoethylphosphonate transaminase [Includes:Phosphonoacetaldehyde hydrolase ;2-aminoethylphosphonate--pyruvate transaminase] \| Pathway: \| COG: Amino acid transport and metabolism CD630_28800 - celC Type: Gene Product:PTS system, cellobiose-specific IIA component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_15650 - ilvC Type: Gene Product:Ketol-acid reductoisomerase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_28810 - celG Type: Gene Product:Putative cellobiose-phosphate degrading protein \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_28840 - celA Type: Gene Product:PTS system, cellobiose-specific IIB component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_05660 - Type: Gene Product:Putative tRNA/rRNA methyltransferase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_19350 - spoVS Type: Gene Product:Stage V sporulation protein S \| Pathway: \| COG: Function unknown CD630_05670 - Type: Gene Product:Conserved hypothetical protein, DegV family \| Pathway: \| COG: Function unknown CD630_24800 - Type: Gene Product:Putative hydrolase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_08110 - Type: Gene Product:Putative cyclic di-GMP regulatory protein \| Pathway: \| COG: Signal transduction mechanisms CD630_12650 - Type: Gene Product:Transcriptional regulator, CarD family \| Pathway: \| COG: Transcription CD630_18930 - Type: Gene Product:Putative oligonucleotide binding regulator \| Pathway: \| COG: Function unknown CD630_28830 - celB Type: Gene Product:PTS system, cellobiose-specific IIC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_08070 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_28820 - celF Type: Gene Product:Cellobiose-6-phosphate hydrolase, family 4 \| Pathway: \| COG: Carbohydrate transport and metabolism	0	`NA`	0.51	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`
Module_363	22 CD630_24630 - hrcA Type: Gene Product:Transcriptional regulator, Heat-induciblerepressor HrcA \| Pathway: \| COG: Transcription CD630_20120 - hydD Type: Gene Product:Putative hydrolase \| Pathway: \| COG: Function unknown CD630_20730 - xdhA Type: Gene Product:Xanthine dehydrogenase, molybdenum bindingsubunit \| Pathway: \| COG: Energy production and conversion CD630_08220 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_15020 - deoC Type: Gene Product:Deoxyribose-phosphate aldolase(Phosphodeoxyriboaldolase) (Deoxyriboaldolase) (DERA) \| Pathway: Carbohydrate degradation \| COG: Nucleotide transport and metabolism CD630_08240 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_16370 - Type: Gene Product:Putative calcium-transporting ATPase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_16350 - terD Type: Gene Product:Tellurium resistance protein \| Pathway: \| COG: Signal transduction mechanisms CD630_01320 - Type: Gene Product:Putative DNA helicase, RecD/TraA type \| Pathway: \| COG: Replication, recombination and repair CD630_25490 - Type: Gene Product:ABC-type transport system, sugar-family permease \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_16410 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_16430 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_25470 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_20130 - hydR Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_08230 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_20740 - Type: Gene Product:Putative FAD-binding subunit of xanthinedehydrogenase \| Pathway: \| COG: Energy production and conversion CD630_16400 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_01330 - Type: Gene Product:Putative phosphoribosyl transferase \| Pathway: \| COG: Function unknown CD630_16380 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_25480 - Type: Gene Product:ABC-type transport system, sugar-family permease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_16420 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_25500 - Type: Gene Product:ABC-type transport system, sugar-familyextracellular solute-binding protein \| Pathway: \| COG: Carbohydrate transport and metabolism	0.00025	2.4	0.51	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_11770 - fapR Type: Gene Product:Transcriptional regulator, DeoR family (Fattyacid and phospholipid biosynthesis regulator) \| Pathway: \| COG: Transcription 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_94	5 CD630_14240 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_18800 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_31580 - Type: Gene Product:Transcriptional regulator, TRAP family \| Pathway: \| COG: Function unknown CD630_06580 - cdu1 Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_27880 - Type: Gene Product:Putative membrane protein, GtrA family \| Pathway: \| COG: Function unknown	`NA`	`NA`	0.51	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_06290 - Type: Gene Product:Transcriptional regulator, Crp family \| Pathway: \| COG: Transcription CD630_06580 - cdu1 Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| 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_395	18 CD630_05760 - virS Type: Gene Product:Sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_07760 - Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_06010 - ogt1 Type: Gene Product:Methylated-DNA-[protein]-cysteineS-methyltransferase 1 \| Pathway: \| COG: Replication, recombination and repair CD630_27650 - LcpA Type: Gene Product:Surface-anchoring factors, LytR-CpsA-Psr-likeprotein \| Pathway: \| COG: Transcription CD630_13420 - Type: Gene Product:Putative ribonuclease \| Pathway: \| COG: Replication, recombination and repair CD630_20760 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_33670 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_06640 - tcdC Type: Gene Product:Negative regulator of toxin gene expression \| Pathway: \| COG: Function unknown CD630_09790 - Type: Gene Product:Transcriptional regulator, beta-lactams repressorPhage-type \| Pathway: \| COG: Transcription CD630_20650 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_01810 - Type: Gene Product:Putative membrane-associated metalloprotease, M56family \| Pathway: \| COG: Transcription, Signal transduction mechanisms CD630_08290 - Type: Gene Product:Putative metallo-beta-lactamase superfamilyprotein \| Pathway: \| COG: Function unknown CD630_34080 - Type: Gene Product:Putative DNA mismatch repair ATPase MutS \| Pathway: \| COG: Replication, recombination and repair CD630_12490 - Type: Gene Product:Putative radical SAM-superfamily protein \| Pathway: \| COG: Chromatin structure and dynamics, Transcription CD630_26030 - cdtR Type: Gene Product:Clostridium difficile binary toxin regulatorygene, LytTR family \| Pathway: \| COG: Signal transduction mechanisms CD630_01830 - Type: Gene Product:Putative cell wall hydrolase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_00300 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_01780 - Type: Gene Product:Putative ATPase \| Pathway: \| COG: Function unknown	0.00051	`NA`	0.51	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_18100 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| 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_95	30 CD630_30090 - Type: Gene Product:Putative pyridine nucleotide-disulphideoxidoreductase, class I \| Pathway: \| COG: Energy production and conversion CD630_32410 - prdB Type: Gene Product:Proline reductase (selenocysteine) \| Pathway: \| COG: Function unknown CD630_01700 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Function unknown CD630_24050 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_07790 - Type: Gene Product:Putative amidohydrolase, M20D peptidase family \| Pathway: \| COG: Amino acid transport and metabolism CD630_07910 - Type: Gene Product:Conserved hypothetical protein, UPF0029 family \| Pathway: \| COG: Function unknown CD630_32380 - Type: Gene Product:Putative component of proline reductaseprdE-like \| Pathway: \| COG: Function unknown CD630_30100 - Type: Gene Product:Putative cytochrome C assembly protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_07770 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_24080 - Type: Gene Product:Putative multidrug efflux pump \| Pathway: \| COG: Function unknown CD630_12810 - mnmA Type: Gene Product:tRNA-specific 2-thiouridylase MnmA \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_07040 - Type: Gene Product:Putative metal-dependent phosphohydrolase \| Pathway: \| COG: Function unknown CD630_24060 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_01710 - rex Type: Gene Product:Transcriptional regulator, Redox-sensingrepressor Rex \| Pathway: \| COG: Transcription CD630_32400 - prdD Type: Gene Product:Proline reductase PrdD \| Pathway: \| COG: Function unknown CD630_07780 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_14930 - Type: Gene Product:Putative 3-methyladenine DNA glycosylase \| Pathway: \| COG: Replication, recombination and repair CD630_24070 - Type: Gene Product:Putative multidrug efflux pump \| Pathway: \| COG: Defense mechanisms CD630_10620 - acpP Type: Gene Product:Acyl carrier protein (ACP) \| Pathway: Lipid metabolism \| COG: Lipid transport and metabolism CD630_07800 - Type: Gene Product:Conserved hypothetical protein, DUF1177 family \| Pathway: \| COG: Function unknown CD630_01690 - Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_16740 - Type: Gene Product:Putative NADPH-dependent FMN reductase \| Pathway: \| COG: Function unknown CD630_30110 - Type: Gene Product:Transcriptional regulator, HxlR family DUF24 \| Pathway: \| COG: Transcription CD630_07030 - Type: Gene Product:Putative peptidase, U32 family \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_32390 - prdE Type: Gene Product:Proline reductase PrdE \| Pathway: \| COG: Function unknown CD630_07050 - Type: Gene Product:Putative hydrolase, NUDIX family \| Pathway: \| COG: Replication, recombination and repair CD630_32360 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_32370 - prdF Type: Gene Product:Proline racemase \| Pathway: \| COG: Amino acid transport and metabolism CD630_31080 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_24730 - rpsT Type: Gene Product:30S ribosomal protein S20 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis	0.00000046	0.72	0.51	Inferelator: 3 Hypergeometric: 3 TF Influences from Inferelator CD630_06700 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_18100 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_24120 - Type: Gene Product:Putative negative regulator of gluconeogenesis \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_10640 - ccpA Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_31760 - glnF Type: Gene Product:RNA polymerase sigma-54 factor \| Pathway: \| COG: Transcription
Module_15	20 CD630_09900 - leuC Type: Gene Product:3-isopropylmalate dehydratase large subunit \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_17160 - Type: Gene Product:Putative permease \| Pathway: \| COG: Nucleotide transport and metabolism CD630_25000 - argH Type: Gene Product:Argininosuccinate lyase (Arginosuccinase) (ASAL) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_25210 - leuS Type: Gene Product:Leucyl-tRNA synthetase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_09910 - leuD Type: Gene Product:3-isopropylmalate dehydratase small subunit \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_22450 - asnC Type: Gene Product:Asparaginyl-tRNA synthetase (Asparagine--tRNAligase) (AsnRS) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_32560 - valS Type: Gene Product:valyl-tRNA synthetase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_17170 - Type: Gene Product:Conserved hypothetical protein, DUF917 family \| Pathway: \| COG: Function unknown CD630_00500 - proS Type: Gene Product:Prolyl-tRNA synthetase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_26950 - asnA Type: Gene Product:Aspartate--ammonia ligase (Asparagine synthetaseA) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_05740 - thrS Type: Gene Product:Threonyl-tRNA synthetase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_26940 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_00140 - serS1 Type: Gene Product:Seryl-tRNA synthetase 1 \| Pathway: Aminoacyl-tRNA biosynthesis \| COG: Translation, ribosomal structure and biogenesis CD630_17180 - Type: Gene Product:Putative hydantoinase (Disrupted IStron) \| Pathway: \| COG: Amino acid transport and metabolism, Secondary metabolites biosynthesis, transport and catabolism, Amino acid transport and metabolism, Secondary metabolites biosynthesis, transport and catabolism CD630_00490 - proS Type: Gene Product:Prolyl-tRNA synthetase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_09890 - leuA Type: Gene Product:2-isopropylmalate synthase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_15800 - hom2 Type: Gene Product:Homoserine dehydrogenase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_09920 - leuB Type: Gene Product:3-isopropylmalate dehydrogenase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_15810 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_15210 - tyrS Type: Gene Product:Tyrosyl-tRNA synthetase (Tyrosine--tRNA ligase)(TyrRS) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis	3.89995e-41	2e-16	0.51	Inferelator: 4 Hypergeometric: 0 TF Influences from Inferelator CD630_06700 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_19100 - eutV Type: Gene Product:Two-component response regulator, Ethanolaminespecific \| Pathway: \| COG: Signal transduction mechanisms CD630_20480 - Type: Gene Product:Transcriptional regulator, RpiR 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_234	24 CD630_27320 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_33861 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn7-Orf23 \| Pathway: \| COG: Function unknown CD630_31000 - Type: Gene Product:Putative C4-dicarboxylate anaerobic carrier, DcuCfamily \| Pathway: \| COG: Function unknown CD630_32990 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_30940 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_16270 - vanY Type: Gene Product:D-alanyl-D-alanine carboxypeptidase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_33880 - Type: Gene Product:Putative replication initiation factorTn916-like, CTn7-Orf27 \| Pathway: \| COG: Transcription CD630_06500 - Type: Gene Product:Putative peptidase, S9 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_01990 - Type: Gene Product:Putative membrane-associated nucleotidase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_04600 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Defense mechanisms CD630_24351 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_28380 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_20171 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_06490 - Type: Gene Product:Putative peptidase, S9 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_03050 - Type: Gene Product:Putative glutamate carboxypeptidase \| Pathway: \| COG: Amino acid transport and metabolism CD630_19490 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_04560 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Replication, recombination and repair CD630_16200 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_06510 - Type: Gene Product:Putative permease \| Pathway: \| COG: Function unknown CD630_16260 - vanG Type: Gene Product:D-alanine--D-alanine ligase 2 \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_22010 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_16280 - vanT Type: Gene Product:Alanine racemase 1 \| Pathway: Amino-acid biosynthesis \| COG: Cell wall/membrane/envelope biogenesis CD630_30990 - Type: Gene Product:Putative amidohydrolase, M20D family \| Pathway: \| COG: Amino acid transport and metabolism CD630_04590 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms	2.4	`NA`	0.51	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_02760 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_30940 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_172	8 CD630_16020 - Type: Gene Product:PTS system, lactose/cellobiose-family IIBcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_19901 - Type: Gene Product:Fragment of transcriptional regulator,beta-lactams repressor (Part 2) \| Pathway: \| COG: Transcription CD630_27120 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_14750 - Type: Gene Product:Putative hydrolase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_11740 - Type: Gene Product:Conserved hypothetical protein, DUF795 family,UPF0348 family \| Pathway: \| COG: Function unknown CD630_15980 - Type: Gene Product:Putative excinuclease ABC-like \| Pathway: \| COG: Replication, recombination and repair CD630_21510 - Type: Gene Product:Putative membrane protein, DUF819 family \| Pathway: \| COG: Function unknown CD630_01780 - Type: Gene Product:Putative ATPase \| Pathway: \| COG: Function unknown	`NA`	`NA`	0.51	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_04020 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_20230 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_21940 - Type: Gene Product:Putative ROK protein \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_97	29 CD630_33020 - chrA Type: Gene Product:Chromate transport protein ChrA \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_35960 - Type: Gene Product:putative homocysteine S-methyltransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_35980 - luxS Type: Gene Product:S-ribosylhomocysteine lyase (Autoinducer-2production protein luxS) (AI-2 synthesis protein) \| Pathway: \| COG: Signal transduction mechanisms CD630_13410 - exoA Type: Gene Product:Exodeoxyribonuclease \| Pathway: \| COG: Replication, recombination and repair CD630_00150 - tadA Type: Gene Product:tRNA specific adenosine deaminase \| Pathway: \| COG: Nucleotide transport and metabolism, Translation, ribosomal structure and biogenesis CD630_05220 - Type: Gene Product:Putative c-di-GMP regulatory protein \| Pathway: \| COG: Signal transduction mechanisms 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_11850 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_15680 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_32300 - bclA2 Type: Gene Product:Exosporium glycoprotein \| Pathway: \| COG: Function unknown CD630_08280 - Type: Gene Product:Putative oxidative stress glutamate synthase \| Pathway: \| COG: Amino acid transport and metabolism CD630_15340 - ggt Type: Gene Product:Gamma-glutamyltranspeptidase \| Pathway: \| COG: Amino acid transport and metabolism CD630_35970 - Type: Gene Product:Putative S-adenosyl-L-methionine dependentmethionine synthase \| Pathway: \| COG: Function unknown CD630_32320 - CdsB Type: Gene Product:Cysteine desulfidase \| Pathway: \| COG: Function unknown CD630_12910 - dacF Type: Gene Product:D-alanyl-D-alanine carboxypeptidase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_12900 - Type: Gene Product:Putative small acid-soluble spore protein SASP \| Pathway: \| COG: CD630_06950 - Type: Gene Product:Putative exported metalloendopeptidase \| Pathway: \| COG: Amino acid transport and metabolism CD630_32310 - hpt Type: Gene Product:Hypoxanthine phosphoribosyltransferase \| Pathway: Purine metabolism \| COG: Nucleotide transport and metabolism CD630_21090 - Type: Gene Product:Putative anion:Na+ symporter \| Pathway: \| COG: Function unknown CD630_05230 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Function unknown CD630_08250 - rbr Type: Gene Product:Rubrerythrin \| Pathway: \| COG: Energy production and conversion CD630_28870 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_07070 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_25150 - Type: Gene Product:Putative L-aspartate-beta-decarboxylase \| Pathway: \| COG: Amino acid transport and metabolism CD630_22610 - Type: Gene Product:Putative peptidase, M24 family \| Pathway: \| COG: Amino acid transport and metabolism	1.5e-18	`NA`	0.51	Inferelator: 4 Hypergeometric: 0 TF Influences from Inferelator CD630_12390 - Type: Gene Product:Transcriptional regulator, beta-lactams repressorPhage-type \| 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 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`