Phatr_bicluster_0252 Residual: 0.40
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_0252 0.40 Phaeodactylum tricornutum
Displaying 1 - 30 of 30
PHATRDRAFT_1379 disease resistance protein

PHATRDRAFT_1379 - disease resistance protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_1379
PHATRDRAFT_15859 helicase domain protein (HA)

PHATRDRAFT_15859 - helicase domain protein (HA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15859
PHATRDRAFT_39504

PHATRDRAFT_39504 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39504
PHATRDRAFT_39652

PHATRDRAFT_39652 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39652
PHATRDRAFT_41647

PHATRDRAFT_41647 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41647
PHATRDRAFT_42587 leishmanolysin-like (metallopeptidase m8 family) (Peptidase_M8 superfamily)

PHATRDRAFT_42587 - leishmanolysin-like (metallopeptidase m8 family) (Peptidase_M8 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42587
PHATRDRAFT_42846

PHATRDRAFT_42846 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42846
PHATRDRAFT_43867 helicase domain protein (HA)

PHATRDRAFT_43867 - helicase domain protein (HA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43867
PHATRDRAFT_44101

PHATRDRAFT_44101 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44101
PHATRDRAFT_44131 gamma-aminobutyric acidb2 (5_nucleotid_C)

PHATRDRAFT_44131 - gamma-aminobutyric acidb2 (5_nucleotid_C)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44131
PHATRDRAFT_44901 (zf-HC5HC2H)

PHATRDRAFT_44901 - (zf-HC5HC2H)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44901
PHATRDRAFT_45147 bri1-kd interacting protein 135

PHATRDRAFT_45147 - bri1-kd interacting protein 135

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45147
PHATRDRAFT_47875

PHATRDRAFT_47875 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47875
PHATRDRAFT_48168

PHATRDRAFT_48168 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48168
PHATRDRAFT_49099

PHATRDRAFT_49099 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49099
PHATRDRAFT_49201

PHATRDRAFT_49201 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49201
PHATRDRAFT_49346 (7tm_3 superfamily)

PHATRDRAFT_49346 - (7tm_3 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49346
PHATRDRAFT_49357

PHATRDRAFT_49357 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49357
PHATRDRAFT_49652 carboxy-terminal peptidase (Peptidase_S41_CPP)

PHATRDRAFT_49652 - carboxy-terminal peptidase (Peptidase_S41_CPP)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49652
PHATRDRAFT_49720

PHATRDRAFT_49720 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49720
PHATRDRAFT_49759 proteophosphoglycan ppg4

PHATRDRAFT_49759 - proteophosphoglycan ppg4

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49759
PHATRDRAFT_49938 phd zn finger-containing protein (HMGB-UBF_HMG-box)

PHATRDRAFT_49938 - phd zn finger-containing protein (HMGB-UBF_HMG-box)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49938
PHATRDRAFT_50197 trypanothione-dependent peroxidase (Thioredoxin_like superfamily)

PHATRDRAFT_50197 - trypanothione-dependent peroxidase (Thioredoxin_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50197
PHATRDRAFT_50254

PHATRDRAFT_50254 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50254
PHATRDRAFT_50346

PHATRDRAFT_50346 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50346
PHATRDRAFT_50551 sodium:solute symporter family protein (SLC5-6-like_sbd superfamily)

PHATRDRAFT_50551 - sodium:solute symporter family protein (SLC5-6-like_sbd superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50551
PHATRDRAFT_50616 serine threonine protein kinase and signal transduction histidine kinasewith gaf sensor (COG3899)

PHATRDRAFT_50616 - serine threonine protein kinase and signal transduction histidine kinasewith gaf sensor (COG3899)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50616
PHATRDRAFT_50617 serine threonine kinase with two-component sensor domain (AAA_16)

PHATRDRAFT_50617 - serine threonine kinase with two-component sensor domain (AAA_16)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50617
PHATRDRAFT_676 cation-transportinge1-e2 family (ZntA)

PHATRDRAFT_676 - cation-transportinge1-e2 family (ZntA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_676
PHATRDRAFT_9200 serine threonine kinase 4 (PKc_like superfamily)

PHATRDRAFT_9200 - serine threonine kinase 4 (PKc_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_9200
GO ID Go Term p-value q-value Cluster
GO:0009166 nucleotide catabolism 0.0118109 1 Phatr_bicluster_0252
GO:0007155 cell adhesion 0.0502429 1 Phatr_bicluster_0252
GO:0006355 regulation of transcription, DNA-dependent 0.05187 1 Phatr_bicluster_0252
GO:0015992 proton transport 0.0540081 1 Phatr_bicluster_0252
GO:0006508 proteolysis and peptidolysis 0.0548534 1 Phatr_bicluster_0252
GO:0030001 metal ion transport 0.0614964 1 Phatr_bicluster_0252
GO:0006812 cation transport 0.101699 1 Phatr_bicluster_0252
GO:0006468 protein amino acid phosphorylation 0.14602 1 Phatr_bicluster_0252
GO:0006810 transport 0.539115 1 Phatr_bicluster_0252
GO:0006118 electron transport 0.606744 1 Phatr_bicluster_0252
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