Phatr_bicluster_0018 Residual: 0.38
Phaeodactylum tricornutum

Module Page Help

What is a module?

Regulatory units (modules) in the Network Portal are based on the network inference algorithm used. For the current version, modules are based on cMonkey modules and Inferelator regulatory influences on these modules. More specifically, module refers to set of genes that are conditionally co-regulated under subset of the conditions. Identification of modules integrates co-expression, de-novo motif identification, and other functional associations such as operon information and protein-protein interactions.

Expression Profiles

Expression profiles is a plot of the expression ratios (log10) of the module's genes, over all subset of the conditions included in the module. The X-axis represent conditions and the Y-axis represents log10 expression ratios. Each gene is plotted as line plot with different colors. Colored legend for the lines are presented under the plot. This plot is dynamic. Clicking on the gene names in the legend will show/hide the plot for that particular gene. A tooltip will show expression ratio information if you mouseover the lines in the plot.

Motif Locations

Location of the Identified motifs for the module in the upstream regions of the member genes are shown under the expression profiles plot. This plot shows the diagram of the upstream positions of the motifs, colored red and green for motifs #1, and 2, respectively. Intensity of the color is proportional to the significance of the occurence of that motif at a given location. Motifs on the forward and reverse strand are represented over and under the line respectively.

Regulators

For each module, single or AND logic connected regulatory influences are listed under the regulators tab. These regulatory influences are identified by Inferelator. Table shows name of the regulator and its type. tf: Transcription factor, ef: Environmental factor and combiner:Combinatorial influence of a tf or an ef through logic gate. Tabel is sortable by clicking on the arrows next to column headers.

Motifs

Transcription factor binding motifs help to elucidate regulatory mechanism. cMonkey integrates powerful de novo motif detection to identify conditionally co-regulated sets of genes. De novo predicted motifs for each module are listed in the module page as motif logo images along with associated prediction statistics (e-values). The main module page also shows the location of these motifs within the upstream sequences of the module member genes.
Title Residual Model version Organism
Phatr_bicluster_0018 0.38 Phaeodactylum tricornutum
Displaying 1 - 56 of 56
PHATRDRAFT_11204 serine carboxypeptidase (Peptidase_S10 superfamily)

PHATRDRAFT_11204 - serine carboxypeptidase (Peptidase_S10 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11204
PHATRDRAFT_11781 protein disulfide isomerase-associated 4 (PDI_a_family)

PHATRDRAFT_11781 - protein disulfide isomerase-associated 4 (PDI_a_family)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11781
PHATRDRAFT_12877 ring finger and chy zinc finger domain containing 1 (zf-CHY)

PHATRDRAFT_12877 - ring finger and chy zinc finger domain containing 1 (zf-CHY)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_12877
PHATRDRAFT_13356 6-phosphogluconate dehydrogenase (PLN02350)

PHATRDRAFT_13356 - 6-phosphogluconate dehydrogenase (PLN02350)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_13356
PHATRDRAFT_14518 protein phosphataseregulatory subunit 7 (LRR_RI superfamily)

PHATRDRAFT_14518 - protein phosphataseregulatory subunit 7 (LRR_RI superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14518
PHATRDRAFT_16210 mitochondrial carrier (Mito_carr)

PHATRDRAFT_16210 - mitochondrial carrier (Mito_carr)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16210
PHATRDRAFT_26934 af394510_16-phosphogluconate dehydrogenase (PLN02350)

PHATRDRAFT_26934 - af394510_16-phosphogluconate dehydrogenase (PLN02350)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_26934
PHATRDRAFT_28222 transaldolase (PTZ00411)

PHATRDRAFT_28222 - transaldolase (PTZ00411)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_28222
PHATRDRAFT_29456 glyceraldehyde-3-phosphate dehydrogenase (PTZ00023)

PHATRDRAFT_29456 - glyceraldehyde-3-phosphate dehydrogenase (PTZ00023)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_29456
PHATRDRAFT_30519 (PRK12999)

PHATRDRAFT_30519 - (PRK12999)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_30519
PHATRDRAFT_33260

PHATRDRAFT_33260 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33260
PHATRDRAFT_42245 electron transfer flavoprotein-ubiquinonemitochondrial precursor (FixC)

PHATRDRAFT_42245 - electron transfer flavoprotein-ubiquinonemitochondrial precursor (FixC)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42245
PHATRDRAFT_42447 fructose-bisphosphate aldolase (PRK05377)

PHATRDRAFT_42447 - fructose-bisphosphate aldolase (PRK05377)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42447
PHATRDRAFT_42488

PHATRDRAFT_42488 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42488
PHATRDRAFT_43020 amino acid transporter (Aa_trans superfamily)

PHATRDRAFT_42888 - amino acid transporter (Aa_trans superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42888
PHATRDRAFT_43083

PHATRDRAFT_43020 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43020
PHATRDRAFT_43312

PHATRDRAFT_43083 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43083
PHATRDRAFT_43364 pyridoxamine 5-phosphate oxidase-fmn-binding protein (flavohem_like_fad_nad_binding)

PHATRDRAFT_43312 - pyridoxamine 5-phosphate oxidase-fmn-binding protein (flavohem_like_fad_nad_binding)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43312
PHATRDRAFT_43460 hsf-type dna-binding domain containing protein (HSF_DNA-bind)

PHATRDRAFT_43364 - hsf-type dna-binding domain containing protein (HSF_DNA-bind)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43364
PHATRDRAFT_43726

PHATRDRAFT_43460 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43460
PHATRDRAFT_44024

PHATRDRAFT_43726 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43726
PHATRDRAFT_44098

PHATRDRAFT_44024 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44024
PHATRDRAFT_44313

PHATRDRAFT_44098 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44098
PHATRDRAFT_44434 rubredoxin family protein

PHATRDRAFT_44313 - rubredoxin family protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44313
PHATRDRAFT_44750 inwardly rectifying potassium channel (IRK superfamily)

PHATRDRAFT_44434 - inwardly rectifying potassium channel (IRK superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44434
PHATRDRAFT_45028 (HSF_DNA-bind superfamily)

PHATRDRAFT_44750 - (HSF_DNA-bind superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44750
PHATRDRAFT_45119 leishmanolysin family protein

PHATRDRAFT_45028 - leishmanolysin family protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45028
PHATRDRAFT_45428 co zn cd cation transporters (MMT1)

PHATRDRAFT_45119 - co zn cd cation transporters (MMT1)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45119
PHATRDRAFT_45514 soluble pyridine nucleotide transhydrogenase (Lpd)

PHATRDRAFT_45428 - soluble pyridine nucleotide transhydrogenase (Lpd)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45428
PHATRDRAFT_45835

PHATRDRAFT_45514 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45514
PHATRDRAFT_45886 (Sterol-sensing superfamily)

PHATRDRAFT_45835 - (Sterol-sensing superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45835
PHATRDRAFT_46312 carboxyl transferase (COG4799)

PHATRDRAFT_45886 - carboxyl transferase (COG4799)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45886
PHATRDRAFT_46377 mc family transporter (Mito_carr superfamily)

PHATRDRAFT_46312 - mc family transporter (Mito_carr superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46312
PHATRDRAFT_46403

PHATRDRAFT_46377 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46377
PHATRDRAFT_46882

PHATRDRAFT_46403 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46403
PHATRDRAFT_46995

PHATRDRAFT_46882 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46882
PHATRDRAFT_47512 (Grp1_Fun34_YaaH superfamily)

PHATRDRAFT_46995 - (Grp1_Fun34_YaaH superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46995
PHATRDRAFT_47649

PHATRDRAFT_47512 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47512
PHATRDRAFT_48235

PHATRDRAFT_47649 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47649
PHATRDRAFT_48577 2og-feoxygenase family (2OG-FeII_Oxy_3)

PHATRDRAFT_48235 - 2og-feoxygenase family (2OG-FeII_Oxy_3)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48235
PHATRDRAFT_48600

PHATRDRAFT_48577 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48577
PHATRDRAFT_48800 steroid reductase (DUF1295 superfamily)

PHATRDRAFT_48600 - steroid reductase (DUF1295 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48600
PHATRDRAFT_48886 (PAS)

PHATRDRAFT_48800 - (PAS)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48800
PHATRDRAFT_48892 sodium hydrogen exchanger family protein (NhaP)

PHATRDRAFT_48886 - sodium hydrogen exchanger family protein (NhaP)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48886
PHATRDRAFT_49358 small-conductance mechanosensitive channel (MscS)

PHATRDRAFT_48892 - small-conductance mechanosensitive channel (MscS)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48892
PHATRDRAFT_49683 nitrate reductase (Cyt-b5)

PHATRDRAFT_49358 - nitrate reductase (Cyt-b5)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49358
PHATRDRAFT_50038

PHATRDRAFT_49683 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49683
PHATRDRAFT_50289 btb poz domain-containing protein

PHATRDRAFT_50038 - btb poz domain-containing protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50038
PHATRDRAFT_50525

PHATRDRAFT_50289 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50289
PHATRDRAFT_51128 loc414512 protein (NADB_Rossmann superfamily)

PHATRDRAFT_50525 - loc414512 protein (NADB_Rossmann superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50525
PHATRDRAFT_51245 glyceraldehyde-3-phosphate dehydrogenase (PTZ00023)

PHATRDRAFT_51128 - glyceraldehyde-3-phosphate dehydrogenase (PTZ00023)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_51128
PHATRDRAFT_54190 propionyl-alpha subunit (COG4770)

PHATRDRAFT_51245 - propionyl-alpha subunit (COG4770)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_51245
PHATRDRAFT_55018 annexin a13 (Annexin)

PHATRDRAFT_54190 - annexin a13 (Annexin)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54190
PHATRDRAFT_5546 phosphoenolpyruvate carboxykinase (PEPCK_ATP)

PHATRDRAFT_55018 - phosphoenolpyruvate carboxykinase (PEPCK_ATP)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_55018
PHATRDRAFT_8445 rexo4_klula rna exonuclease 4 (REX4_like)

PHATRDRAFT_5546 - rexo4_klula rna exonuclease 4 (REX4_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_5546

PHATRDRAFT_8445 - rna binding (RRM_SF superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_8445
GO ID Go Term p-value q-value Cluster
GO:0006098 pentose-phosphate shunt 0.00000883 0.0204395 Phatr_bicluster_0018
GO:0006006 glucose metabolism 0.00123992 1 Phatr_bicluster_0018
GO:0006096 glycolysis 0.00247235 1 Phatr_bicluster_0018
GO:0008272 sulfate transport 0.00790319 1 Phatr_bicluster_0018
GO:0006094 gluconeogenesis 0.0389152 1 Phatr_bicluster_0018
GO:0006885 regulation of pH 0.0615557 1 Phatr_bicluster_0018
GO:0006633 fatty acid biosynthesis 0.0981466 1 Phatr_bicluster_0018
GO:0006118 electron transport 0.10379 1 Phatr_bicluster_0018
GO:0006813 potassium ion transport 0.14706 1 Phatr_bicluster_0018
GO:0006520 amino acid metabolism 0.173847 1 Phatr_bicluster_0018
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