Phatr_bicluster_0168 Residual: 0.27
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_0168 0.27 Phaeodactylum tricornutum
Displaying 1 - 23 of 23
PHATRDRAFT_23281 nrs er (nucleotide-rhamnose synthase epimerase-reductase) (PLN02778)

PHATRDRAFT_23281 - nrs er (nucleotide-rhamnose synthase epimerase-reductase) (PLN02778)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_23281
PHATRDRAFT_31781 novel proteinx-ray repair complementing defective repair in chinese hamster cells 3 (zgc:101608) (RecA-like_NTPases superfamily)

PHATRDRAFT_31781 - novel proteinx-ray repair complementing defective repair in chinese hamster cells 3 (zgc:101608) (RecA-like_NTPases superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_31781
PHATRDRAFT_33755

PHATRDRAFT_33755 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33755
PHATRDRAFT_38049 capsule polysaccharide export system inner membrane protein

PHATRDRAFT_38049 - capsule polysaccharide export system inner membrane protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38049
PHATRDRAFT_39015

PHATRDRAFT_39015 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39015
PHATRDRAFT_39065

PHATRDRAFT_39065 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39065
PHATRDRAFT_40472

PHATRDRAFT_40472 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40472
PHATRDRAFT_42946 (Got1)

PHATRDRAFT_42946 - (Got1)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42946
PHATRDRAFT_44397 sam domain and hd1 (COG1078)

PHATRDRAFT_44397 - sam domain and hd1 (COG1078)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44397
PHATRDRAFT_44739 glycosyl transferase

PHATRDRAFT_44739 - glycosyl transferase

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44739
PHATRDRAFT_46392

PHATRDRAFT_46392 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46392
PHATRDRAFT_46458

PHATRDRAFT_46458 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46458
PHATRDRAFT_46705

PHATRDRAFT_46705 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46705
PHATRDRAFT_47185 transposase (DDE_3)

PHATRDRAFT_47185 - transposase (DDE_3)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47185
PHATRDRAFT_47534

PHATRDRAFT_47534 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47534
PHATRDRAFT_47592

PHATRDRAFT_47592 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47592
PHATRDRAFT_47992 serine threonine protein kinase (PKc_like superfamily)

PHATRDRAFT_47992 - serine threonine protein kinase (PKc_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47992
PHATRDRAFT_48134 unc104-like kinesin (Motor_domain superfamily)

PHATRDRAFT_48134 - unc104-like kinesin (Motor_domain superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48134
PHATRDRAFT_48171 kelch motif family protein

PHATRDRAFT_48171 - kelch motif family protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48171
PHATRDRAFT_48673

PHATRDRAFT_48673 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48673
PHATRDRAFT_49680

PHATRDRAFT_49680 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49680
PHATRDRAFT_49930

PHATRDRAFT_49930 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49930
PHATRDRAFT_50208

PHATRDRAFT_50208 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50208
GO ID Go Term p-value q-value Cluster
GO:0007018 microtubule-based movement 0.036519 1 Phatr_bicluster_0168
GO:0006281 DNA repair 0.0413065 1 Phatr_bicluster_0168
GO:0006310 DNA recombination 0.0448846 1 Phatr_bicluster_0168
GO:0006468 protein amino acid phosphorylation 0.195192 1 Phatr_bicluster_0168
GO:0006508 proteolysis and peptidolysis 0.247762 1 Phatr_bicluster_0168
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