Phatr_bicluster_0193 Residual: 0.36
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_0193 0.36 Phaeodactylum tricornutum
Displaying 1 - 24 of 24
PHATRDRAFT_11423

PHATRDRAFT_11423 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11423
PHATRDRAFT_11901 chromatin modifying protein 1b (Snf7 superfamily)

PHATRDRAFT_11901 - chromatin modifying protein 1b (Snf7 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11901
PHATRDRAFT_15749 leucine rich repeat-like protein

PHATRDRAFT_15749 - leucine rich repeat-like protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15749
PHATRDRAFT_42443 wd-40 repeat (WD40 superfamily)

PHATRDRAFT_42443 - wd-40 repeat (WD40 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42443
PHATRDRAFT_44388

PHATRDRAFT_44388 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44388
PHATRDRAFT_44873 protein epd2 precursor (Glyco_hydro_72 superfamily)

PHATRDRAFT_44873 - protein epd2 precursor (Glyco_hydro_72 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44873
PHATRDRAFT_45436

PHATRDRAFT_45436 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45436
PHATRDRAFT_46213 ganp protein (SAC3_GANP)

PHATRDRAFT_46213 - ganp protein (SAC3_GANP)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46213
PHATRDRAFT_46302

PHATRDRAFT_46302 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46302
PHATRDRAFT_46499

PHATRDRAFT_46499 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46499
PHATRDRAFT_47034

PHATRDRAFT_46841 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46841
PHATRDRAFT_47597

PHATRDRAFT_47034 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47034
PHATRDRAFT_47686 (Alginate_lyase)

PHATRDRAFT_47597 - (Alginate_lyase)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47597
PHATRDRAFT_47701

PHATRDRAFT_47686 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47686
PHATRDRAFT_48347

PHATRDRAFT_47701 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47701
PHATRDRAFT_49011

PHATRDRAFT_48347 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48347
PHATRDRAFT_49030

PHATRDRAFT_49011 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49011
PHATRDRAFT_49218

PHATRDRAFT_49030 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49030
PHATRDRAFT_49486

PHATRDRAFT_49218 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49218
PHATRDRAFT_50133 smp-30 gluconolaconase lre-like region (SGL)

PHATRDRAFT_49486 - smp-30 gluconolaconase lre-like region (SGL)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49486
PHATRDRAFT_50250 (ANK)

PHATRDRAFT_50133 - (ANK)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50133
PHATRDRAFT_50575

PHATRDRAFT_50250 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50250
PHATRDRAFT_53980

PHATRDRAFT_50575 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50575

PHATRDRAFT_53980 - (gelsolin_S1_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_53980
GO ID Go Term p-value q-value Cluster
GO:0006813 potassium ion transport 0.014749 1 Phatr_bicluster_0193
GO:0006355 regulation of transcription, DNA-dependent 0.15368 1 Phatr_bicluster_0193
GO:0008152 metabolism 0.202444 1 Phatr_bicluster_0193
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