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 21 - 30 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_402	17 CD630_00600 - nusG Type: Gene Product:transcription antitermination protein \| Pathway: \| COG: Transcription CD630_00530 - mrnC Type: Gene Product:Ribonuclease III \| Pathway: \| COG: Function unknown CD630_21370 - frr Type: Gene Product:Ribosome-recycling factor \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_00540 - thyX Type: Gene Product:Thymidylate synthase \| Pathway: Pyrimidine metabolism \| COG: Nucleotide transport and metabolism CD630_00640 - rplL Type: Gene Product:50S ribosomal protein L7/L12 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_00620 - rplA Type: Gene Product:50S ribosomal protein L1 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_21380 - pyrH Type: Gene Product:Uridylate kinase (UK) (Uridine monophosphatekinase) (UMP kinase) (UMPK) \| 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_21390 - tsf Type: Gene Product:Elongation factor Ts (EF-Ts) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_00590 - secE Type: Gene Product:Preprotein translocase SecE subunit \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport 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_00630 - rplJ Type: Gene Product:50S ribosomal protein L10 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_00560 - Type: Gene Product:Putative ribonuclease \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_00550 - Type: Gene Product:Putative tRNA/rRNA methyltransferase, TrmHfamily, group3 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_00610 - rplK Type: Gene Product:50S ribosomal protein L11 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_00570 - sigH Type: Gene Product:RNA polymerase factor sigma-70 \| Pathway: \| COG: Transcription	`NA`	`NA`	0.32	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_400	19 CD630_01170 - Type: Gene Product:Putative ferredoxin/flavodoxin oxidoreductase,beta subunit \| Pathway: \| COG: Energy production and conversion CD630_21360 - uppS Type: Gene Product:Undecaprenyl pyrophosphate synthetase \| Pathway: \| COG: Lipid transport and metabolism CD630_21361 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_01160 - Type: Gene Product:Putative ferredoxin/flavodoxin oxidoreductase,alpha subunit \| Pathway: \| COG: Energy production and conversion CD630_01180 - Type: Gene Product:Putative ferredoxin/flavodoxin oxidoreductase,gamma subunit \| Pathway: \| COG: Energy production and conversion CD630_01140 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_24460 - Type: Gene Product:Putative aspartyl/glutamyl-tRNA amidotransferasesubunit B-related \| Pathway: \| COG: Function unknown CD630_21350 - cdsA Type: Gene Product:Phosphatidate cytidylyltransferase CdsA \| Pathway: Phospholipid metabolism \| COG: Lipid transport and metabolism CD630_01120 - ptb Type: Gene Product:phosphate butyryltransferase \| Pathway: \| COG: Energy production and conversion CD630_21370 - frr Type: Gene Product:Ribosome-recycling factor \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_01150 - Type: Gene Product:Putative 4Fe-4S ferredoxin, iron-sulfur bindingdomain protein, delta subunit \| Pathway: \| COG: Energy production and conversion CD630_34740 - atpB Type: Gene Product:ATP synthase subunit a \| Pathway: \| COG: Energy production and conversion CD630_01190 - glmM Type: Gene Product:Phosphoglucosamine mutase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_34720 - atpF Type: Gene Product:ATP synthase subunit b \| Pathway: \| COG: Energy production and conversion CD630_01130 - buk Type: Gene Product:Butyrate kinase (BK) (Branched-chain carboxylicacid kinase) \| Pathway: \| COG: Energy production and conversion CD630_34760 - atpZ Type: Gene Product:ATP synthase transporter \| Pathway: \| COG: Function unknown CD630_34670 - atpC Type: Gene Product:ATP synthase epsilon chain \| Pathway: \| COG: Energy production and conversion CD630_21400 - rpsB Type: Gene Product:30S ribosomal protein S2 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_21950 - ftnA Type: Gene Product:Ferritin \| Pathway: \| COG: Inorganic ion transport and metabolism	`NA`	`NA`	0.32	Inferelator: 4 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_22200 - Type: Gene Product:Putative cyclic nucleotides-binding protein \| Pathway: \| COG: Signal transduction mechanisms 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_275	23 CD630_27470 - Type: Gene Product:Putative ubiquinone biosynthesis protein \| Pathway: \| COG: Coenzyme transport and metabolism CD630_33040 - clpX Type: Gene Product:ATP-dependent Clp protease ATP-binding subunitclpX \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_35590 - ftsH2 Type: Gene Product:Cell division protease FtsH2 \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_26980 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_36090 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_27390 - aspS Type: Gene Product:Aspartyl-tRNA synthetase (Aspartate--tRNA ligase)(AspRS) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_26970 - Type: Gene Product:Putative peptidase, M20D family \| Pathway: \| COG: Amino acid transport and metabolism CD630_00510 - gltX Type: Gene Product:Glutamyl-tRNA synthetase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_24460 - Type: Gene Product:Putative aspartyl/glutamyl-tRNA amidotransferasesubunit B-related \| Pathway: \| COG: Function unknown CD630_27151 - mldC Type: Gene Product:Midcell localizing division proteins \| Pathway: \| COG: CD630_27170 - mldA Type: Gene Product:Midcell localizing division proteins \| Pathway: \| COG: Function unknown CD630_36100 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_33070 - Type: Gene Product:Putative phosphoesterase \| Pathway: \| COG: Function unknown CD630_27460 - recJ Type: Gene Product:Single-stranded-DNA-specific exonuclease \| Pathway: \| COG: Replication, recombination and repair CD630_33050 - clpP1 Type: Gene Product:ATP-dependent Clp protease proteolytic subunit 1 \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_26990 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_05080 - tetM Type: Gene Product:Tetracycline resistance protein Tn5397 \| Pathway: \| COG: Signal transduction mechanisms CD630_27160 - mldB Type: Gene Product:Midcell localizing division proteins \| Pathway: \| COG: Function unknown CD630_33080 - rph Type: Gene Product:Bifunctional enzyme, tRNA nucleotidyltransferase; Nucleoside-triphosphatase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_27410 - hemZ Type: Gene Product:Coproporphyrinogen III oxidase \| Pathway: \| COG: Coenzyme transport and metabolism CD630_35600 - tilS Type: Gene Product:tRNA(Ile)-lysidine synthase (tRNA(Ile)-lysidinesynthetase) (tRNA(Ile)-2-lysyl-cytidine synthase) \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_27450 - apt Type: Gene Product:Adenine phosphoribosyltransferase (APRT) \| Pathway: Purine metabolism \| COG: Nucleotide transport and metabolism CD630_33060 - tig Type: Gene Product:Trigger factor (TF) \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones	4.2	`NA`	0.33	Inferelator: 2 Hypergeometric: 1 TF Influences from Inferelator CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_27220 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test CD630_10640 - ccpA Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription
Module_307	20 CD630_26190 - Type: Gene Product:Putative cell-division initiation protein DivIVA \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_14950 - proC Type: Gene Product:Pyrroline-5-carboxylate reductase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_26200 - Type: Gene Product:Putative RNA-binding cell division protein \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_17700 - ogt2 Type: Gene Product:Methylated-DNA-[protein]-cysteineS-methyltransferase 2 \| Pathway: \| COG: Replication, recombination and repair CD630_14940 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_22590 - Type: Gene Product:Conserved hypothetical protein with RmlC-likejelly roll fold \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_23800 - iorB Type: Gene Product:Indole pyruvate ferredoxin/flavodoxinoxidoreductase \| Pathway: \| COG: Energy production and conversion CD630_22580 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_15370 - aspB Type: Gene Product:Putative glutamate synthase \| Pathway: \| COG: Amino acid transport and metabolism CD630_23790 - buk Type: Gene Product:Butyrate kinase (Branched-chain carboxylic acidkinase) (BK) \| Pathway: \| COG: Energy production and conversion CD630_36650 - Type: Gene Product:Conserved hypothetical protein, DUF951 family \| Pathway: \| COG: Function unknown CD630_23810 - iorA Type: Gene Product:Indole pyruvate ferredoxin/flavodoxinoxidoreductase \| Pathway: \| COG: Energy production and conversion CD630_15360 - Type: Gene Product:Ferredoxin--NADP(+) reductase subunit alpha \| Pathway: \| COG: Energy production and conversion CD630_26220 - sepF Type: Gene Product:Cell division protein SepF \| Pathway: \| COG: Function unknown CD630_23820 - Type: Gene Product:Putative pyridoxal phosphate-dependenttransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_17710 - Type: Gene Product:Putative monooxygenase \| Pathway: \| COG: Function unknown CD630_36660 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_26240 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_36640 - Type: Gene Product:Putative aminotransferase \| Pathway: \| COG: Transcription CD630_26230 - Type: Gene Product:Putative pyridoxal 5'-phosphate-dependent enzyme \| Pathway: \| COG: Nucleotide transport and metabolism	0.00000000078	`NA`	0.33	Inferelator: 2 Hypergeometric: 1 TF Influences from Inferelator CD630_17980 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_19310 - lexA Type: Gene Product:Transcriptional regulator, LexA repressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription
Module_48	17 CD630_23430 - cat1 Type: Gene Product:Succinyl-CoA:coenzyme A transferase \| Pathway: \| COG: Energy production and conversion CD630_23380 - 4hbD Type: Gene Product:4-hydroxybutyrate dehydrogenase(4-hydroxybutanoate:NAD+ oxidoreductase) \| Pathway: \| COG: Energy production and conversion CD630_23420 - sucD Type: Gene Product:Succinate-semialdehyde dehydrogenase (NAD(P)+) \| Pathway: \| COG: Energy production and conversion CD630_05100 - Type: Gene Product:Putative RNA polymerase sigma factor Tn5397,CTn3-Orf7 \| Pathway: \| COG: Function unknown CD630_05101 - Type: Gene Product:Putative conjugative transposon protein Tn5397,CTn3-Orf8 \| Pathway: \| COG: Function unknown CD630_16390 - Type: Gene Product:Putative tellurite associated resistance protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_08750 - Type: Gene Product:ABC-type transport system, sugar-family permease \| Pathway: \| COG: Function unknown CD630_08730 - Type: Gene Product:ABC-type transport system sugar-familyextracellular solute-binding lipoprotein \| Pathway: \| COG: Function unknown CD630_23390 - cat2 Type: Gene Product:4-hydroxybutyrate CoA transferase \| Pathway: \| COG: Energy production and conversion CD630_08770 - Type: Gene Product:ABC-type transport system, sugar-familyATP-binding protein \| Pathway: \| COG: Function unknown CD630_23440 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_08760 - Type: Gene Product:ABC-type transport system, sugar-familyextracellular solute-binding protein \| Pathway: \| COG: Function unknown CD630_08740 - Type: Gene Product:ABC-type transport system, sugar-familyATP-binding protein \| Pathway: \| COG: Function unknown CD630_08780 - Type: Gene Product:ABC-type transport system, sugar-specificpermease \| Pathway: \| COG: Function unknown CD630_23410 - abfD Type: Gene Product:Gamma-aminobutyrate metabolismdehydratase/isomerase [includes: 4- hydroxybutyryl-coadehydratase; vinylacetyl-coa-delta-isomerase] \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_16340 - terD Type: Gene Product:Tellurium resistance protein \| Pathway: \| COG: Signal transduction mechanisms CD630_23400 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG:	0.000068	`NA`	0.33	Inferelator: 2 Hypergeometric: 2 TF Influences from Inferelator CD630_10090 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_19100 - eutV Type: Gene Product:Two-component response regulator, Ethanolaminespecific \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test CD630_12750 - codY Type: Gene Product:Transcriptional regulator, GTP-sensingpleiotropic repressor \| Pathway: \| COG: Transcription CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription
Module_147	21 CD630_03960 - hadI Type: Gene Product:Activator of 2-hydroxyisocaproyl-CoA dehydratase \| Pathway: \| COG: Lipid transport and metabolism CD630_04010 - etfA1 Type: Gene Product:Alpha-subunit of electron transfer flavoprotein \| Pathway: \| COG: Energy production and conversion CD630_11780 - plsX Type: Gene Product:Fatty acid/phospholipid synthesis protein PlsX \| Pathway: Lipid metabolism \| COG: Lipid transport and metabolism CD630_11800 - fabK Type: Gene Product:Enoyl-(Acyl-carrier-protein) reductase II \| Pathway: \| COG: Lipid transport and metabolism CD630_03950 - hadA Type: Gene Product:Isocaprenoyl-CoA:2-hydroxyisocaproateCoA-transferase \| Pathway: \| COG: Energy production and conversion CD630_11770 - fapR Type: Gene Product:Transcriptional regulator, DeoR family (Fattyacid and phospholipid biosynthesis regulator) \| Pathway: \| COG: Transcription CD630_11810 - fabD Type: Gene Product:Malonyl CoA-acyl carrier protein transacylase(MCT) \| Pathway: \| COG: Lipid transport and metabolism CD630_11790 - fabH Type: Gene Product:3-oxoacyl-[acyl-carrier-protein] synthase 3 \| Pathway: Lipid metabolism \| COG: Lipid transport and metabolism CD630_03990 - acdB Type: Gene Product:Acyl-CoA dehydrogenase, short-chain specific \| Pathway: \| COG: Lipid transport and metabolism CD630_00941 - rpmJ Type: Gene Product:50S ribosomal protein L36 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_09231 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_00881 - rpmD Type: Gene Product:50S ribosomal protein L30 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_03980 - hadC Type: Gene Product:Subunit of oxygen-sensitive2-hydroxyisocaproyl-CoA dehydratase C \| Pathway: \| COG: Amino acid transport and metabolism CD630_11840 - fabF Type: Gene Product:3-oxoacyl-[acyl-carrier-protein] synthase 2 \| Pathway: Lipid metabolism \| COG: Lipid transport and metabolism CD630_00841 - rpsZ Type: Gene Product:30S ribosomal protein S14 type Z \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_11820 - fabG Type: Gene Product:3-oxoacyl-[acyl-carrier protein] reductase(3-ketoacyl-acyl carrier protein reductase) \| Pathway: Lipid metabolism \| COG: Function unknown CD630_11830 - acpP Type: Gene Product:Acyl carrier protein (ACP) \| Pathway: Lipid metabolism \| COG: Lipid transport and metabolism CD630_03970 - hadB Type: Gene Product:Subunit of oxygen-sensitive2-hydroxyisocaproyl-CoA dehydratase B \| Pathway: \| COG: Amino acid transport and metabolism CD630_04000 - etfB1 Type: Gene Product:Beta-subunit of electron transfer flavoprotein \| Pathway: \| COG: Energy production and conversion CD630_00710 - tuf Type: Gene Product:Elongation factor EFTu/EF1A (EF-Tu) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_00801 - rpmC Type: Gene Product:50S ribosomal protein L29 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis	`NA`	`NA`	0.34	Inferelator: 2 Hypergeometric: 1 TF Influences from Inferelator CD630_16930 - Type: Gene Product:Putative dinitrogenase iron-molybdenum cofactor \| Pathway: \| COG: Function unknown CD630_23900 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_31760 - glnF Type: Gene Product:RNA polymerase sigma-54 factor \| Pathway: \| COG: Transcription
Module_49	19 CD630_13250 - Type: Gene Product:Putative tRNA 2-selenouridine synthase,selenophosphate-dependent; Rhodanese-like domain protein \| Pathway: \| COG: Function unknown CD630_13190 - Type: Gene Product:Putative polysaccharide deacetylase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_07430 - Type: Gene Product:Transcriptional regulator, DeoR family \| Pathway: \| COG: Transcription CD630_04100 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf3 \| Pathway: \| COG: Replication, recombination and repair CD630_13230 - tepA Type: Gene Product:Protein export-enhancing factor \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones, Intracellular trafficking, secretion, and vesicular transport CD630_21560 - thiH Type: Gene Product:Thiamine biosynthesis protein ThiH \| Pathway: \| COG: Coenzyme transport and metabolism CD630_21570 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_24030 - dut Type: Gene Product:Deoxyuridine 5'-triphosphate nucleotidohydrolase(dUTPase) (dUTP pyrophosphatase) \| Pathway: Pyrimidine metabolism \| COG: Nucleotide transport and metabolism CD630_21540 - Type: Gene Product:Putative ATP/GTP-binding protein \| Pathway: \| COG: Function unknown CD630_21550 - bioB Type: Gene Product:Biotin synthase \| Pathway: \| COG: Coenzyme transport and metabolism CD630_26830 - Type: Gene Product:Putative propanediol utilization protein \| Pathway: Polyol metabolism \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_36090 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_13220 - dapG Type: Gene Product:Aspartokinase 1 (Aspartokinase I) (1spartatekinase I) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_36100 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_13210 - Type: Gene Product:Putative sporulation protein \| Pathway: \| COG: Function unknown CD630_13200 - Type: Gene Product:Putative peptidase, M16 family \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_24330 - glyQ Type: Gene Product:Glycyl-tRNA synthetase alpha subunit(Glycine--tRNA ligase alpha subunit) (GlyRS) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_21530 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_24320 - glyS Type: Gene Product:Glycyl-tRNA synthetase beta subunit(Glycine--tRNA ligase beta subunit) (GlyRS) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis	0.000006	`NA`	0.34	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_01710 - rex Type: Gene Product:Transcriptional regulator, Redox-sensingrepressor Rex \| 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_255	18 CD630_t0380 - tRNA-Phe Type: Gene Product: \| Pathway: \| COG: CD630_t0260 - tRNA-Glu Type: Gene Product: \| Pathway: \| COG: CD630_t0140 - tRNA-Gln Type: Gene Product: \| Pathway: \| COG: CD630_t0280 - tRNA-Val Type: Gene Product: \| Pathway: \| COG: CD630_t0080 - tRNA-Val Type: Gene Product: \| Pathway: \| COG: CD630_t0750 - tRNA-Val Type: Gene Product: \| Pathway: \| COG: CD630_t0500 - tRNA-Asp Type: Gene Product: \| Pathway: \| COG: CD630_31381 - Type: Gene Product:Fragment of putative phage transcriptionalregulator (C-terminal region) \| Pathway: \| COG: CD630_02420 - Type: Gene Product:Phosphothreonine N-acetylglucosamine catalysis \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_t0540 - tRNA-Arg Type: Gene Product: \| Pathway: \| COG: CD630_t0770 - tRNA-Gly Type: Gene Product: \| Pathway: \| COG: CD630_t0620 - tRNA-Ile Type: Gene Product: \| Pathway: \| COG: CD630_t0760 - tRNA-Asp Type: Gene Product: \| Pathway: \| COG: CD630_t0160 - tRNA-Phe Type: Gene Product: \| Pathway: \| COG: CD630_t0800 - tRNA-Gly Type: Gene Product: \| Pathway: \| COG: CD630_02410 - Type: Gene Product:Phosphate-threonine kinase \| Pathway: \| COG: Amino acid transport and metabolism CD630_t0210 - tRNA-Lys Type: Gene Product: \| Pathway: \| COG: CD630_t0090 - tRNA-Asp Type: Gene Product: \| Pathway: \| COG:	0	0	0.35	Inferelator: 0 Hypergeometric: 0 TF Influences from Inferelator `No TF influences from Inferelator` TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_329	21 CD630_30510 - anmK Type: Gene Product:Anhydro-N-acetylmuramic acid kinase (AnhMurNAckinase) \| Pathway: Amino-sugar metabolism \| COG: Posttranslational modification, protein turnover, chaperones CD630_34130 - Type: Gene Product:Putative nucleotide pyrophosphatase \| Pathway: \| COG: Function unknown CD630_31140 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_30800 - Type: Gene Product:PTS system, lactose/cellobiose-family IIAcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_31050 - Type: Gene Product:Putative iron-containing alcohol dehydrogenase \| Pathway: \| COG: Energy production and conversion CD630_34170 - Type: Gene Product:ABC-type transport system, sugar-familyATP-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_30500 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_31130 - Type: Gene Product:Putative aminobenzoyl-glutamate utilizationprotein B \| Pathway: \| COG: Amino acid transport and metabolism CD630_34160 - Type: Gene Product:ABC-type transport system, sugar-family permease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_30790 - bglA Type: Gene Product:6-phospho-beta-glucosidase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30750 - tagABC Type: Gene Product:PTS system, tagatose-specific IIABC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30810 - Type: Gene Product:PTS system, lactose/cellobiose-family IICcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_34140 - Type: Gene Product:ABC-type transport system, sugar-familyextracellular solute-binding protein \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_31040 - Type: Gene Product:Putative hydrolase, HAD superfamily, IIBsubfamily; putative sugar phosphatase \| Pathway: \| COG: Function unknown CD630_30740 - Type: Gene Product:tagatose-bisphosphate aldolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_34150 - Type: Gene Product:ABC-type transport system, sugar-family permease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_30830 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_30820 - Type: Gene Product:PTS system, lactose/cellobiose-family IIBcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30760 - tagK Type: Gene Product:Tagatose-6-phosphate kinase \| Pathway: Carbohydrate metabolism \| COG: Carbohydrate transport and metabolism CD630_31120 - Type: Gene Product:Putative peptidase, M20D family \| Pathway: \| COG: Amino acid transport and metabolism CD630_30770 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription	0	0.33	0.35	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_02760 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_30770 - Type: Gene Product:Transcriptional regulator, RpiR 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_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