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 71 - 80 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'.

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Title Gene Count Motif 1 e-value Motif 2 e-value Residual Expression TF Influences
Module_344 19
  • CD630_12480 - rnc Type: Gene
    Product:ribonuclease III | Pathway: | COG: Transcription
  • 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_11840 - fabF Type: Gene
    Product:3-oxoacyl-[acyl-carrier-protein] synthase 2 | Pathway: Lipid metabolism | COG: Lipid transport and metabolism
  • CD630_12530 - rpsP Type: Gene
    Product:30S ribosomal protein S16 | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_11780 - plsX Type: Gene
    Product:Fatty acid/phospholipid synthesis protein PlsX | Pathway: Lipid metabolism | COG: Lipid transport and metabolism
  • CD630_21200 - Type: Gene
    Product:Putative 2-nitropropane dioxygenase | Pathway: | COG: Function unknown
  • CD630_12520 - ffh Type: Gene
    Product:Signal recognition particle protein | Pathway: | COG: Intracellular trafficking, secretion, and vesicular transport
  • CD630_12570 - rplS Type: Gene
    Product:50S ribosomal protein L19 | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_12500 - smc Type: Gene
    Product:Structural maintenance chromosome protein SMC | Pathway: | COG: Cell cycle control, cell division, chromosome partitioning
  • CD630_01770 - cfa Type: Gene
    Product:Cyclopropane-fatty-acyl-phospholipid synthase | Pathway: | COG: Cell wall/membrane/envelope biogenesis
  • CD630_12470 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_12511 - Type: Gene
    Product:Putative DNA-binding regulator | Pathway: | COG: Function unknown
  • CD630_12460 - efp Type: Gene
    Product:Elongation factor P (EF-P) | Pathway: Protein biosynthesis | COG: Translation, ribosomal structure and biogenesis
  • CD630_12540 - Type: Gene
    Product:Putative RNA-binding protein | Pathway: | COG: Function unknown
  • CD630_11830 - acpP Type: Gene
    Product:Acyl carrier protein (ACP) | Pathway: Lipid metabolism | COG: Lipid transport and metabolism
  • CD630_12490 - Type: Gene
    Product:Putative radical SAM-superfamily protein | Pathway: | COG: Chromatin structure and dynamics, Transcription
  • CD630_12550 - rimM Type: Gene
    Product:16S rRNA processing protein RimM | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_12560 - trmD Type: Gene
    Product:tRNA (guanine-N(1)-)-methyltransferase(M1G-methyltransferase) (tRNA [GM37] methyltransferase ) | Pathway: | COG: Translation, ribosomal structure and biogenesis
0.38 2.8 0.42 Inferelator: 4
Hypergeometric: 0

TF Influences from Inferelator

  1. CD630_11770 - fapR Type: Gene
    Product:Transcriptional regulator, DeoR family (Fattyacid and phospholipid biosynthesis regulator) | Pathway: | COG: Transcription
  2. CD630_16920 - Type: Gene
    Product:Transcriptional regulator, ArsR family | Pathway: | COG: Transcription
  3. CD630_17820 - Type: Gene
    Product:Two-component response regulator | Pathway: | COG: Signal transduction mechanisms
  4. 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_153 21
  • CD630_26850 - Type: Gene
    Product:Putative sporulation stage II, protein E | Pathway: | COG: Signal transduction mechanisms
  • CD630_18910 - Type: Gene
    Product:Fragment of ABC-type transport system,substrate-binding protein (Part 2) | Pathway: | COG: Inorganic ion transport and metabolism, Inorganic ion transport and metabolism
NA NA 0.42 Inferelator: 1
Hypergeometric: 0

TF Influences from Inferelator

  1. CD630_11770 - fapR Type: Gene
    Product:Transcriptional regulator, DeoR family (Fattyacid and phospholipid biosynthesis regulator) | Pathway: | COG: Transcription

TF Influences from Hypergeometric Test

No TF Influences from the hypergeometric test
Module_257 7
  • CD630_17410 - Type: Gene
    Product:Selenoprotein B,glycine/betaine/sarcosine/D-proline reductase family(sarcosine reductase) | Pathway: | COG: Function unknown
  • CD630_08580 - Type: Gene
    Product:Fragment of transcriptional regulator,sigma-54-dependent (Part 1), PRD domain | Pathway: | COG: Signal transduction mechanisms, Signal transduction mechanisms
  • CD630_31001 - Type: Gene
    Product:Fragment of artefact | Pathway: | COG:
  • CD630_27000 - Type: Gene
    Product:Transcriptional regulator, sigma-54 dependent | Pathway: | COG: Transcription
  • CD630_05990 - Type: Gene
    Product:Fragment of transcriptional regulator, AraCfamily (C-terminal region) | Pathway: | COG: Transcription
  • CD630_05460 - Type: Gene
    Product:Putative membrane protein, DUF975 family | Pathway: | COG: Function unknown
  • CD630_23950 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
NA NA 0.42 Inferelator: 1
Hypergeometric: 0

TF Influences from Inferelator

  1. 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_179 26
  • CD630_01080 - nrdD Type: Gene
    Product:Anaerobic ribonucleoside triphosphate reductase | Pathway: | COG: Nucleotide transport and metabolism
  • CD630_11650 - Type: Gene
    Product:Putative ribosome-associated protein | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_r0050 - 23s_rRNA Type: Gene
    Product: | Pathway: | COG:
  • CD630_r0280 - 23s_rRNA Type: Gene
    Product: | Pathway: | COG:
  • CD630_11630 - rpmA Type: Gene
    Product:50S ribosomal protein L27 | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_11610 - rplU Type: Gene
    Product:50S ribosomal protein L21 | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_06770 - sigT Type: Gene
    Product:Extra-Cytoplasmic Function sigma factors, ECFfamily | Pathway: | COG: Transcription
  • CD630_11590 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_11640 - obgE Type: Gene
    Product:Spo0B-associated GTP-binding protein | Pathway: | COG: Energy production and conversion
  • CD630_24400 - Type: Gene
    Product:Putative metal-dependent hydrolase | Pathway: | COG: Nucleotide transport and metabolism
  • CD630_r0230 - 23s_rRNA Type: Gene
    Product: | Pathway: | COG:
  • CD630_t0810 - tRNA-Leu Type: Gene
    Product: | Pathway: | COG:
  • CD630_01090 - nrdG Type: Gene
    Product:Anaerobic ribonucleoside-triphosphatereductase-activating protein | Pathway: | COG: Posttranslational modification, protein turnover, chaperones
  • CD630_31760 - glnF Type: Gene
    Product:RNA polymerase sigma-54 factor | Pathway: | COG: Transcription
  • CD630_11600 - rng Type: Gene
    Product:Ribonuclease G (RNase G) (Cytoplasmic axialfilament protein) | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_11620 - Type: Gene
    Product:Putative ribosome-associated protein | Pathway: | COG: Function unknown
  • CD630_24390 - Type: Gene
    Product:Putative diacylglycerol kinase | Pathway: | COG: Cell wall/membrane/envelope biogenesis
  • CD630_11580 - Type: Gene
    Product:Putative radical SAM-superfamily protein | Pathway: | COG: Energy production and conversion
  • CD630_06760 - rsiT Type: Gene
    Product:Anti Sigma factors, ECF family | Pathway: | COG: Function unknown
  • CD630_01070 - aspC Type: Gene
    Product:Aspartate aminotransferase | Pathway: | COG: Amino acid transport and metabolism
  • CD630_24360 - Type: Gene
    Product:Putative divalent cation transporter, MgtEfamily | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_r0150 - 5s_rRNA Type: Gene
    Product: | Pathway: | COG:
0.000000026 0.00000027 0.42 Inferelator: 4
Hypergeometric: 0

TF Influences from Inferelator

  1. CD630_06480 - Type: Gene
    Product:Transcriptional regulator, GntR family | Pathway: | COG: Transcription
  2. CD630_16920 - Type: Gene
    Product:Transcriptional regulator, ArsR family | Pathway: | COG: Transcription
  3. CD630_23900 - Type: Gene
    Product:Transcriptional regulator, beta-lactamsrepressor | Pathway: | COG: Transcription
  4. CD630_30540 - 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_230 19
  • CD630_28040 - queA Type: Gene
    Product:S-adenosylmethionine:tRNAribosyltransferase-isomerase (Queuosine biosynthesisprotein QueA) | Pathway: tRNA modification | COG: Translation, ribosomal structure and biogenesis
  • CD630_11650 - Type: Gene
    Product:Putative ribosome-associated protein | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_28020 - tgt Type: Gene
    Product:Queuine tRNA-ribosyltransferase (tRNA-guaninetransglycosylase) (Guanine insertion enzyme) | Pathway: tRNA modification | COG: Translation, ribosomal structure and biogenesis
  • CD630_11640 - obgE Type: Gene
    Product:Spo0B-associated GTP-binding protein | Pathway: | COG: Energy production and conversion
  • CD630_15690 - Type: Gene
    Product:Transcriptional regulator, MarR family | Pathway: | COG: Transcription
  • CD630_11600 - rng Type: Gene
    Product:Ribonuclease G (RNase G) (Cytoplasmic axialfilament protein) | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_11620 - Type: Gene
    Product:Putative ribosome-associated protein | Pathway: | COG: Function unknown
  • CD630_28030 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
  • CD630_11630 - rpmA Type: Gene
    Product:50S ribosomal protein L27 | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_05290 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
  • CD630_11610 - rplU Type: Gene
    Product:50S ribosomal protein L21 | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_05300 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
  • CD630_05280 - Type: Gene
    Product:Putative amidohydrolase | Pathway: | COG: Amino acid transport and metabolism
  • CD630_11580 - Type: Gene
    Product:Putative radical SAM-superfamily protein | Pathway: | COG: Energy production and conversion
  • CD630_19660 - Type: Gene
    Product:Putative acyl-CoA thioesterase | Pathway: | COG: Function unknown
  • CD630_28010 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Intracellular trafficking, secretion, and vesicular transport
  • CD630_28000 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
  • CD630_11590 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_15700 - Type: Gene
    Product:Putative lysophospholipase (Disrupted by IStron) | Pathway: | COG: Lipid transport and metabolism, Lipid transport and metabolism
0.03 NA 0.43 Inferelator: 1
Hypergeometric: 0

TF Influences from Inferelator

  1. CD630_06480 - Type: Gene
    Product:Transcriptional regulator, GntR family | Pathway: | COG: Transcription

TF Influences from Hypergeometric Test

No TF Influences from the hypergeometric test
Module_127 27
  • CD630_01920 - cls Type: Gene
    Product:Cardiolipin synthetase 1 | Pathway: | COG: Lipid transport and metabolism
  • CD630_33040 - clpX Type: Gene
    Product:ATP-dependent Clp protease ATP-binding subunitclpX | Pathway: | COG: Posttranslational modification, protein turnover, chaperones
  • CD630_24490 - Type: Gene
    Product:Putative methyltransferase | Pathway: | COG: Function unknown
  • CD630_01900 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
  • CD630_01890 - Type: Gene
    Product:Transcriptional regulator, LysR family | Pathway: | COG: Transcription
  • CD630_22260 - sat Type: Gene
    Product:Streptogramin A acetyltransferase (Virginiamycinacetyltransferase D) (Vat(D)) | Pathway: | COG: Function unknown
  • CD630_34680 - atpD Type: Gene
    Product:ATP synthase subunit beta | Pathway: | COG: Energy production and conversion
  • CD630_01950 - Type: Gene
    Product:Putative NCAIR-mutase (PurE)-related protein | Pathway: | COG: Function unknown
  • CD630_34700 - atpA Type: Gene
    Product:ATPase subunit alpha | Pathway: | COG: Energy production and conversion
  • CD630_22640 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG:
  • CD630_24500 - prmA Type: Gene
    Product:Ribosomal protein L11 methyltransferase (L11Mtase) | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_33070 - Type: Gene
    Product:Putative phosphoesterase | Pathway: | COG: Function unknown
  • CD630_22520 - Type: Gene
    Product:Glutamate 2,3-aminomutase | Pathway: | COG: Amino acid transport and metabolism
  • CD630_20260 - Type: Gene
    Product:Putative acetyltransferase | Pathway: | COG: Function unknown
  • CD630_24020 - Type: Gene
    Product:Putative cell wall hydrolase;phosphatase-associated protein | Pathway: | COG: Cell wall/membrane/envelope biogenesis
  • CD630_24480 - Type: Gene
    Product:Putative MiaB-like tRNA modifying enzyme | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_33050 - clpP1 Type: Gene
    Product:ATP-dependent Clp protease proteolytic subunit 1 | Pathway: | COG: Posttranslational modification, protein turnover, chaperones
  • CD630_01910 - Type: Gene
    Product:Putative DNA glycosylase | Pathway: | COG: Replication, recombination and repair
  • CD630_34690 - atpG Type: Gene
    Product:ATP synthase gamma chain | Pathway: | COG: Energy production and conversion
  • CD630_07550 - pilJ Type: Gene
    Product:Type IV pilus protein | Pathway: | COG: Intracellular trafficking, secretion, and vesicular transport
  • CD630_34710 - atpH Type: Gene
    Product:ATP synthase subunit delta | Pathway: | COG: Energy production and conversion
  • CD630_34750 - atpI Type: Gene
    Product:ATP synthase subunit I | Pathway: | COG: Function unknown
  • CD630_33080 - rph Type: Gene
    Product:Bifunctional enzyme, tRNA nucleotidyltransferase; Nucleoside-triphosphatase | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_24470 - Type: Gene
    Product:Putative histidine triad (HIT) protein | Pathway: | COG: Nucleotide transport and metabolism, Carbohydrate transport and metabolism
  • CD630_22630 - prsA Type: Gene
    Product:Peptidyl-prolyl cis-trans isomerase, PpiC-type | Pathway: | COG: Posttranslational modification, protein turnover, chaperones
  • CD630_33060 - tig Type: Gene
    Product:Trigger factor (TF) | Pathway: | COG: Posttranslational modification, protein turnover, chaperones
  • CD630_36130 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
NA NA 0.43 Inferelator: 3
Hypergeometric: 0

TF Influences from Inferelator

  1. CD630_11770 - fapR Type: Gene
    Product:Transcriptional regulator, DeoR family (Fattyacid and phospholipid biosynthesis regulator) | Pathway: | COG: Transcription
  2. CD630_16920 - Type: Gene
    Product:Transcriptional regulator, ArsR family | Pathway: | COG: Transcription
  3. 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_217 20
  • CD630_06860 - rpmI Type: Gene
    Product:50S ribosomal protein L35 | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_13780 - Type: Gene
    Product:Transcriptional regulator, Phage-type | Pathway: | COG: Transcription
  • CD630_14410 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
  • CD630_18270 - Type: Gene
    Product:Transcriptional regulator, MarR family | Pathway: | COG: Transcription
  • CD630_11330 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG:
  • CD630_34970 - Type: Gene
    Product:Bifunctional protein [Includes: Tetrapyrrolemethylase; NTP pyrophosphohydrolase MazG] | Pathway: | COG: Function unknown
  • CD630_11320 - Type: Gene
    Product:Putative heavy-metal transport/detoxificationprotein | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_35030 - pilD Type: Gene
    Product:Type IV prepilin leader peptidase | Pathway: | COG: Cell motility, Posttranslational modification, protein turnover, chaperones, Intracellular trafficking, secretion, and vesicular transport
  • CD630_35040 - pilD Type: Gene
    Product:Type IV prepilin peptidase, A24A family | Pathway: | COG: Cell motility, Posttranslational modification, protein turnover, chaperones, Intracellular trafficking, secretion, and vesicular transport
  • CD630_35130 - pilA Type: Gene
    Product:Type IV pilus secretion protein | Pathway: | COG: Function unknown
  • CD630_21920 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG:
  • CD630_21160 - bipA Type: Gene
    Product:GTP-binding protein BipA | Pathway: | COG: Signal transduction mechanisms
  • CD630_11310 - Type: Gene
    Product:Putative solute-binding lipoprotein | Pathway: | COG: Amino acid transport and metabolism
  • CD630_18280 - ftsH1 Type: Gene
    Product:Cell division protease FtsH1 | Pathway: | COG: Posttranslational modification, protein turnover, chaperones
  • CD630_06870 - rplT Type: Gene
    Product:50S ribosomal protein L20 | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_06850 - infC Type: Gene
    Product:Translation initiation factor IF-3 | Pathway: | COG: Translation, ribosomal structure and biogenesis
  • CD630_27180 - Type: Gene
    Product:Putative peptidase C60B, sortase B | Pathway: | COG: Intracellular trafficking, secretion, and vesicular transport
  • CD630_34920 - Type: Gene
    Product:Septum formation initiation protein | Pathway: | COG:
  • CD630_34940 - Type: Gene
    Product:Putative spore protein | Pathway: | COG: Function unknown
  • CD630_32190 - hslO Type: Gene
    Product:33 kDa chaperonin (Heat shock protein 33 homolog)(HSP33) | Pathway: | COG: Posttranslational modification, protein turnover, chaperones
0.00019 NA 0.43 Inferelator: 2
Hypergeometric: 0

TF Influences from Inferelator

  1. CD630_06700 - Type: Gene
    Product:Transcriptional regulator, beta-lactamsrepressor | Pathway: | COG: Transcription
  2. 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_404 13
  • CD630_04990 - Type: Gene
    Product:Putative replication initiation factor Tn5397,CTn3-Orf20 | Pathway: | COG: Transcription
  • CD630_04991 - Type: Gene
    Product:Putative conjugative transposon protein Tn5397,CTn3-Orf19 | Pathway: | COG: Function unknown
  • CD630_05010 - Type: Gene
    Product:Putative conjugative transposon protein Tn5397,CTn3-Orf17 | Pathway: | COG: Function unknown
  • CD630_04980 - Type: Gene
    Product:Putative cell-division FtsK/SpoIIIE-familyprotein Tn5397, CTn3-Orf21 | Pathway: | COG: Cell cycle control, cell division, chromosome partitioning
  • CD630_33860 - Type: Gene
    Product:Putative antirestriction protein Tn916-like,CTn7-Orf22 | Pathway: | COG: Function unknown
  • CD630_05030 - Type: Gene
    Product:Putative membrane protein Tn5397, CTn3-Orf15 | Pathway: | COG: Function unknown
  • CD630_04960 - Type: Gene
    Product:Putative conjugative transposon protein DUF961family Tn5397, CTn3-Orf23 | Pathway: | COG: Function unknown
  • CD630_05020 - Type: Gene
    Product:Putative ATPase Tn5397, CTn3-Orf16 | Pathway: | COG: Function unknown
  • CD630_05000 - Type: Gene
    Product:Putative antirestriction protein Tn5397,CTn3-Orf18 | Pathway: | COG: Function unknown
  • CD630_04970 - Type: Gene
    Product:Putative conjugative transposon protein DUF961family Tn5397, CTn3-Orf22 | Pathway: | COG: Function unknown
  • CD630_33850 - Type: Gene
    Product:Putative antirestriction protein Tn916-like,CTn7-Orf21 | Pathway: | COG: Function unknown
  • CD630_10940 - Type: Gene
    Product:Putative RNA polymerase sigma factor Tn1549-like,CTn4-Orf31 | Pathway: | COG: Function unknown
  • CD630_33910 - Type: Gene
    Product:Putative conjugative transposon protein DUF961family Tn916-like, CTn7-Orf30 | Pathway: | COG: Function unknown
0.12 0.51 0.43 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_35 9
  • CD630_31460 - Type: Gene
    Product:Fragment of putative sortase B (Part 1) | Pathway: | COG: Intracellular trafficking, secretion, and vesicular transport
  • CD630_19904 - Type: Gene
    Product:Fragment of conserved hypothetical protein | Pathway: | COG:
  • CD630_23910 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG:
  • CD630_09401 - Type: Gene
    Product:Putative phage protein | Pathway: | COG:
  • CD630_09780 - Type: Gene
    Product:Transcriptional regulator, beta-lactams repressorPhage-type | Pathway: | COG:
  • CD630_19820 - Type: Gene
    Product:Fragment of putative phenazine biosynthesisprotein (Part 1) | Pathway: | COG: Function unknown, Function unknown
  • CD630_12360 - Type: Gene
    Product:Fragment of putative phage protein (part 1) | Pathway: | COG:
  • CD630_05780 - Type: Gene
    Product:Transporter, Major Facilitator Superfamily (MFS) | Pathway: | COG: Carbohydrate transport and metabolism
  • CD630_22180 - int Type: Gene
    Product:Fragment of putative integrase (C-terminalregion) | Pathway: | COG: Replication, recombination and repair
NA NA 0.43 Inferelator: 1
Hypergeometric: 0

TF Influences from Inferelator

  1. CD630_05790 - Type: Gene
    Product:Transcriptional regulator, TetR family | Pathway: | COG: Transcription

TF Influences from Hypergeometric Test

No TF Influences from the hypergeometric test
Module_219 20
  • CD630_28620 - Type: Gene
    Product:Putative peptidase, M19 family | Pathway: | COG: Amino acid transport and metabolism
  • CD630_35320 - phnM Type: Gene
    Product:Putative carbon-phosphorus lyase complex subunit | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_10200 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
  • CD630_35310 - Type: Gene
    Product:Putative polymerase/histidinol phosphatase-like | Pathway: | COG: Function unknown
  • CD630_35340 - phnK Type: Gene
    Product:ABC-type transport system, phosphonate-specificATP-binding protein | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_04350 - Type: Gene
    Product:Putative sigma factor Tn1549-like, CTn2-Orf31 | Pathway: | COG: Function unknown
  • CD630_35350 - phnJ Type: Gene
    Product:Putative phosphonate metabolism protein | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_01650 - Type: Gene
    Product:Putative amino acid transporter | Pathway: | COG: Amino acid transport and metabolism
  • CD630_10190 - Type: Gene
    Product:Conserved hypothetical protein | Pathway: | COG: Function unknown
  • CD630_35300 - Type: Gene
    Product:ABC-type transport system, iron-familyATP-binding protein | Pathway: | COG: Amino acid transport and metabolism
  • CD630_35280 - Type: Gene
    Product:ABC-type transport system, iron-familyextracellular solute-binding protein | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_01660 - Type: Gene
    Product:Putative peptidase, M20D family | Pathway: | COG: Amino acid transport and metabolism
  • CD630_28600 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
  • CD630_18780 - Type: Gene
    Product:Putative sigma factor Tn1549-like, CTn5-Orf38 | Pathway: | COG: Function unknown
  • CD630_10210 - Type: Gene
    Product:Putative spore coat protein | Pathway: | COG: Cell wall/membrane/envelope biogenesis
  • CD630_35360 - phnI Type: Gene
    Product:Putative phosphonate metabolism protein | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_35370 - phnH Type: Gene
    Product:Putative phosphonate metabolism protein | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_35380 - phnG Type: Gene
    Product:Putative phosphonate metabolism protein | Pathway: | COG: Inorganic ion transport and metabolism
  • CD630_28590 - Type: Gene
    Product:Putative D-aminoacylase | Pathway: | COG: Secondary metabolites biosynthesis, transport and catabolism
  • CD630_28610 - Type: Gene
    Product:Putative membrane protein | Pathway: | COG: Function unknown
0.35 NA 0.43 Inferelator: 2
Hypergeometric: 1

TF Influences from Inferelator

  1. CD630_04500 - Type: Gene
    Product:Putative transcriptional regulator | Pathway: | COG: Transcription
  2. CD630_27320 - Type: Gene
    Product:Transcriptional regulator, sigma-54-dependent | Pathway: | COG: Transcription

TF Influences from Hypergeometric Test

  1. CD630_12750 - codY Type: Gene
    Product:Transcriptional regulator, GTP-sensingpleiotropic repressor | Pathway: | COG: Transcription