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 61 - 70 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_162	20 CD630_09430 - Type: Gene Product:Putative phage DNA-binding protein \| Pathway: \| COG: Function unknown CD630_36260 - Type: Gene Product:Putative 4-hydroxy-2-oxoglutarate aldolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_36300 - Type: Gene Product:PTS system, fructose/mannitol-family IIBcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_28970 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_36310 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_29020 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_36290 - Type: Gene Product:PTS system, fructose/mannitol-family IICcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_28960 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_36430 - Type: Gene Product:Dihydroorotase \| Pathway: \| COG: Function unknown CD630_36420 - Type: Gene Product:Putative selenocysteine synthase \| Pathway: \| COG: Amino acid transport and metabolism CD630_09440 - Type: Gene Product:Putative phage terminase, large subunit \| Pathway: \| COG: Replication, recombination and repair CD630_29070 - Type: Gene Product:Putative phage lipoprotein \| Pathway: \| COG: Function unknown CD630_28990 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_36280 - Type: Gene Product:Putative phosphosugar isomerase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_09450 - Type: Gene Product:Putative phage portal protein \| Pathway: \| COG: Function unknown CD630_36440 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_36410 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_36270 - dapA4 Type: Gene Product:Dihydrodipicolinate synthase 4 (DHDPS) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_29000 - Type: Gene Product:Putative phage tail protein \| Pathway: \| COG: Function unknown CD630_29060 - Type: Gene Product:Putative phage protein \| Pathway: \| COG:	0.02	`NA`	0.37	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_02760 - Type: Gene Product:Transcriptional regulator, AraC family \| 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_218	19 CD630_04351 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf32 \| Pathway: \| COG: CD630_04360 - Type: Gene Product:Putative recombinase Tn1549-like, CTn2-Orf34 \| Pathway: \| COG: Replication, recombination and repair CD630_21140 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_33722 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn7-Orf6 \| Pathway: \| COG: Function unknown CD630_21130 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms	`NA`	`NA`	0.49	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_21140 - 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_82	31 CD630_21210 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_30370 - Type: Gene Product:Transcriptional regulator, CarD family \| Pathway: \| COG: Transcription CD630_14960 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_24590 - Type: Gene Product:Putative glucokinase, ROK family \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_28330 - Type: Gene Product:Putative calcium-transporting ATPase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_34630 - alr2 Type: Gene Product:Alanine racemase 2 \| Pathway: Amino-acid biosynthesis \| COG: Cell wall/membrane/envelope biogenesis CD630_26290 - spoIVA Type: Gene Product:Stage IV sporulation protein A \| Pathway: \| COG: Function unknown CD630_35190 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_35210 - Type: Gene Product:Putative peptidase T, M20B family \| Pathway: \| COG: Amino acid transport and metabolism CD630_06670 - cdd4 Type: Gene Product:ABC-type transport system,lantibiotic/multidrug-family ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_14330 - cotE Type: Gene Product:Spore coat protein CotE; peroxiredoxin/chitinase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_34620 - Type: Gene Product:Putative antitoxin EndoAI \| Pathway: \| COG: Transcription CD630_01060 - cwlD Type: Gene Product:Germination-specific N-acetylmuramoyl-L-alanineamidase, Autolysin \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_14030 - Type: Gene Product:Putative synthetase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_24090 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_05460 - Type: Gene Product:Putative membrane protein, DUF975 family \| Pathway: \| COG: Function unknown CD630_34660 - acpS Type: Gene Product:Holo-[acyl-carrier-protein] synthase \| Pathway: \| COG: Lipid transport and metabolism CD630_26560 - spoVD Type: Gene Product:Stage V sporulation protein D(Sporulation-specific penicillin-binding protein) \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_10670 - CdeC Type: Gene Product:Clostridium difficile exosporium cycteine-richprotein \| Pathway: \| COG: CD630_35220 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_21410 - Type: Gene Product:Serine-type D-Ala-D-Ala carboxypeptidase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_35200 - Type: Gene Product:Putative cation efflux protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_24430 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_34640 - GerS Type: Gene Product:Lipoprotein regulator, germination \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_34570 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_15110 - cotB Type: Gene Product:Spore outer coat layer protein CotB \| Pathway: \| COG: Function unknown CD630_24450 - Type: Gene Product:Putative transmembrane signaling protein,TspO/MBR family \| Pathway: \| COG: Signal transduction mechanisms CD630_34610 - EndoA Type: Gene Product:Endoribonuclease toxin \| Pathway: \| COG: Signal transduction mechanisms CD630_18030 - cwp23 Type: Gene Product:Putative cell wall-binding protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_34650 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_26570 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG:	0.0000000013	`NA`	0.39	Inferelator: 1 Hypergeometric: 2 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 CD630_26430 - sigE Type: Gene Product:RNA polymerase sigma-E factor \| Pathway: \| COG: Transcription
Module_2	22 CD630_31460 - Type: Gene Product:Fragment of putative sortase B (Part 1) \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_30620 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription CD630_30530 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_04020 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_08990 - dinB Type: Gene Product:DNA polymerase IV (Pol IV) \| Pathway: \| COG: Replication, recombination and repair CD630_30940 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_28410 - Type: Gene Product:Putative amidohydrolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_16210 - Type: Gene Product:Putative mechanosensitive ion channel protein,MscS family \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_06290 - Type: Gene Product:Transcriptional regulator, Crp family \| Pathway: \| COG: Transcription CD630_09490 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_16630 - guaD Type: Gene Product:Guanine deaminase (Guanase) (Guanine aminase)(Guanine aminohydrolase) (GAH) \| Pathway: \| COG: Nucleotide transport and metabolism CD630_09060 - Type: Gene Product:Putative phage DNA-binding protein \| Pathway: \| COG: CD630_19650 - Type: Gene Product:Putative permease \| Pathway: \| COG: Function unknown CD630_15320 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_30540 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_21260 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_29110 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_08310 - Type: Gene Product:Putative ATP-dependent RNA helicase \| Pathway: \| COG: Replication, recombination and repair CD630_10800 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: CD630_05790 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_31871 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_15330 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Defense mechanisms	0.0000000000000014	`NA`	0.63	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_30540 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms 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_314	26 CD630_03510 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_11261 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_15280 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_07060 - Type: Gene Product:Putative nitroreductase \| Pathway: \| COG: Energy production and conversion CD630_02920 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_31410 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_31390 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_08140 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_r0060 - 5s_rRNA Type: Gene Product: \| Pathway: \| COG: CD630_03500 - Type: Gene Product:Putative hydrolase, HAD superfamily \| Pathway: \| COG: Function unknown CD630_07430 - Type: Gene Product:Transcriptional regulator, DeoR family \| Pathway: \| COG: Transcription CD630_20520 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Function unknown CD630_11270 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_15290 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Function unknown CD630_31400 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_15270 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Defense mechanisms CD630_08150 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Carbohydrate transport and metabolism	0.000038	`NA`	0.52	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_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_18	20 CD630_06890 - Type: Gene Product:Putative nucleotide phosphodiesterase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_19870 - cwp28 Type: Gene Product:Putative cell wall binding protein \| Pathway: \| COG: Function unknown CD630_03910 - asnB Type: Gene Product:Asparagine synthetase [glutamine-hydrolyzing] \| Pathway: \| COG: Amino acid transport and metabolism CD630_32300 - bclA2 Type: Gene Product:Exosporium glycoprotein \| Pathway: \| COG: Function unknown CD630_15951 - Type: Gene Product:Ferredoxin \| Pathway: \| COG: Energy production and conversion CD630_07960 - Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_19060 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_24411 - Type: Gene Product:PhoH-like protein \| Pathway: \| COG: Signal transduction mechanisms CD630_32310 - hpt Type: Gene Product:Hypoxanthine phosphoribosyltransferase \| Pathway: Purine metabolism \| COG: Nucleotide transport and metabolism CD630_31590 - Type: Gene Product:Putative FemA-like peptidoglycan biosynthesisprotein \| Pathway: \| COG: Function unknown CD630_21520 - Type: Gene Product:Putative glutamyl-aminopeptidase, M42 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_25370 - Type: Gene Product:Putative membrane-associated5'-nucleotidase/phosphoesterase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_12590 - brnQ-1 Type: Gene Product:Branched chain amino acid transport systemcarrier protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_19040 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_27990 - cwp8 Type: Gene Product:Cell wall binding protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis	0.00000000000017	`NA`	0.63	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_12390 - Type: Gene Product:Transcriptional regulator, beta-lactams repressorPhage-type \| Pathway: \| COG: Transcription CD630_26400 - nrdR Type: Gene Product:Transcriptional regulator, repressor NrdR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_251	24 CD630_26350 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_10660 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_26370 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_01260 - spoIIID Type: Gene Product:Stage III sporulation protein D \| Pathway: \| COG: Transcription CD630_34990 - spoVT Type: Gene Product:Stage V sporulation protein T \| Pathway: \| COG: Transcription CD630_35690 - Type: Gene Product:Sporulation-specific protease \| Pathway: \| COG: Function unknown CD630_01240 - spoIID Type: Gene Product:Stage II sporulation protein D \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_35670 - SipL Type: Gene Product:SpoIVA-Interacting protein, coat localization \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_26380 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_26400 - nrdR Type: Gene Product:Transcriptional regulator, repressor NrdR family \| Pathway: \| COG: Transcription CD630_26440 - spoIIGA Type: Gene Product:Sporulation sigma-E factor processing peptidase \| Pathway: \| COG: Function unknown CD630_26420 - sigG Type: Gene Product:RNA polymerase sigma-G factor \| Pathway: \| COG: Transcription CD630_35630 - sleB Type: Gene Product:Spore-cortex-lytic protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_34900 - spoIIE Type: Gene Product:Phosphoprotein phosphatase \| Pathway: \| COG: Signal transduction mechanisms CD630_10650 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_26360 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_26340 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_01250 - spoIIQ Type: Gene Product:Stage II sporulation protein Q \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_23750 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_26410 - Type: Gene Product:Putative sporulation protein \| Pathway: \| COG: Function unknown CD630_23740 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_35640 - spoIIR Type: Gene Product:Pro-sigma(E) endopeptidase (stage IIsporulation) \| Pathway: \| COG: Function unknown CD630_26390 - Type: Gene Product:Putative laccase protein \| Pathway: \| COG: Function unknown CD630_26430 - sigE Type: Gene Product:RNA polymerase sigma-E factor \| Pathway: \| COG: Transcription	0.00053	`NA`	0.35	Inferelator: 2 Hypergeometric: 3 TF Influences from Inferelator CD630_26420 - sigG Type: Gene Product:RNA polymerase sigma-G 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 CD630_26430 - sigE Type: Gene Product:RNA polymerase sigma-E factor \| Pathway: \| COG: Transcription CD630_26420 - sigG Type: Gene Product:RNA polymerase sigma-G factor \| Pathway: \| COG: Transcription
Module_115	24 CD630_00670 - rpoC Type: Gene Product:DNA-directed RNA polymerase subunit beta' \| Pathway: \| COG: Transcription CD630_26720 - appA Type: Gene Product:ABC-type transport system, oligopeptide-familysolute-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_26700 - appF Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_00590 - secE Type: Gene Product:Preprotein translocase SecE subunit \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_00610 - rplK Type: Gene Product:50S ribosomal protein L11 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_00630 - rplJ Type: Gene Product:50S ribosomal protein L10 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_00570 - sigH Type: Gene Product:RNA polymerase factor sigma-70 \| Pathway: \| COG: Transcription CD630_00530 - mrnC Type: Gene Product:Ribonuclease III \| Pathway: \| COG: Function unknown CD630_00550 - Type: Gene Product:Putative tRNA/rRNA methyltransferase, TrmHfamily, group3 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_23340 - mtlA Type: Gene Product:PTS system, mannitol-specific, IICB component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_23320 - mtlF Type: Gene Product:PTS system, mannitol-specific, EIIA component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_26710 - appD Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Amino acid transport and metabolism, Inorganic ion transport and metabolism CD630_00660 - rpoB Type: Gene Product:DNA-directed RNA polymerase subunit beta \| Pathway: \| COG: Transcription CD630_26730 - appB Type: Gene Product:ABC-type transport system, oligopeptide-familypermease protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_00620 - rplA Type: Gene Product:50S ribosomal protein L1 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_00640 - rplL Type: Gene Product:50S ribosomal protein L7/L12 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_00600 - nusG Type: Gene Product:transcription antitermination protein \| Pathway: \| COG: Transcription CD630_00581 - rpmG Type: Gene Product:50S ribosomal protein L33 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_00580 - tuf1 Type: Gene Product:Elongation factor EFTu/EF1A \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_00560 - Type: Gene Product:Putative ribonuclease \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_00540 - thyX Type: Gene Product:Thymidylate synthase \| Pathway: Pyrimidine metabolism \| COG: Nucleotide transport and metabolism CD630_00520 - cysS Type: Gene Product:Cysteinyl-tRNA synthetase (Cysteine--tRNA ligase)(CysRS) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_23310 - mtlD Type: Gene Product:Mannitol-1-phosphate 5-dehydrogenase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_26740 - appC Type: Gene Product:ABC-type transport system, oligopeptide-familypermease protein \| Pathway: \| COG: Inorganic ion transport and metabolism	`NA`	`NA`	0.47	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_17980 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription
Module_171	21 CD630_25740 - thiN Type: Gene Product:Thiamine pyrophosphokinase (TPK) (Thiaminediphospho kinase) \| Pathway: \| COG: Coenzyme transport and metabolism CD630_25830 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_25850 - def2 Type: Gene Product:Peptide deformylase 2 (PDF 2) (Polypeptidedeformylase 2 ) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_25840 - fmt Type: Gene Product:Methionyl-tRNA formyltransferase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_25810 - rsmB Type: Gene Product:Ribosomal RNA small subunit methyltransferase B(rRNA (cytosine-C(5)-)-methyltransferase) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_16870 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: CD630_25760 - Type: Gene Product:Putative GTPase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_25800 - Type: Gene Product:Putative radical SAM-family protein \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_25820 - Type: Gene Product:Putative metal-dependent peptidase \| Pathway: \| COG: Function unknown CD630_16880 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_25890 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_25750 - rpe Type: Gene Product:Ribulose-phosphate 3-epimerase(Pentose-5-phosphate 3-epimerase) (PPE) (R5P3E) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_16890 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_25880 - gmk Type: Gene Product:Guanylate kinase (GMP kinase) \| Pathway: \| COG: Nucleotide transport and metabolism CD630_16850 - Type: Gene Product:Putative binding protein \| Pathway: \| COG: Replication, recombination and repair CD630_25860 - priA Type: Gene Product:Primosomal protein N' (ATP-dependent helicasepriA) (Replication factor Y) \| Pathway: \| COG: Replication, recombination and repair CD630_25871 - rpoZ Type: Gene Product:DNA-directed RNA polymerase subunit omega (RNAPomega subunit) (Transcriptase subunit omega) (RNApolymerase omega subunit) \| Pathway: \| COG: Transcription CD630_19970 - Type: Gene Product:Putative proline iminopeptidase (PIP), S33family \| Pathway: \| COG: Function unknown CD630_19980 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_25870 - coaBC Type: Gene Product:Coenzyme A biosynthesis bifunctional proteinCoaBC; phosphopantothenoylcysteinesynthetase/decarboxylase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_16860 - Type: Gene Product:Transcriptional regulator, repressor-like \| Pathway: \| COG: Transcription	3.2	`NA`	0.42	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`