Phatr_bicluster_0206 Residual: 0.26
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_0206 0.26 Phaeodactylum tricornutum
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Displaying 1 - 29 of 29
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PHATRDRAFT_33500

PHATRDRAFT_33500 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33500
PHATRDRAFT_35355

PHATRDRAFT_35355 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35355
PHATRDRAFT_37408

PHATRDRAFT_37408 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37408
PHATRDRAFT_37714

PHATRDRAFT_37714 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37714
PHATRDRAFT_37761 (DDE_Tnp_1_7 superfamily)

PHATRDRAFT_37761 - (DDE_Tnp_1_7 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37761
PHATRDRAFT_38156

PHATRDRAFT_38156 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38156
PHATRDRAFT_38979 ac079131_10 copia-type

PHATRDRAFT_38979 - ac079131_10 copia-type

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38979
PHATRDRAFT_39006

PHATRDRAFT_39006 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39006
PHATRDRAFT_39076 retroelement pol polyprotein

PHATRDRAFT_39076 - retroelement pol polyprotein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39076
PHATRDRAFT_39360

PHATRDRAFT_39360 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39360
PHATRDRAFT_39509

PHATRDRAFT_39509 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39509
PHATRDRAFT_39885

PHATRDRAFT_39885 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39885
PHATRDRAFT_39906

PHATRDRAFT_39906 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39906
PHATRDRAFT_40038

PHATRDRAFT_40038 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40038
PHATRDRAFT_40431 mgc81017 protein (DEP)

PHATRDRAFT_40431 - mgc81017 protein (DEP)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40431
PHATRDRAFT_40608 muc2_humanmucin-2 precursor (intestinal mucin-2)

PHATRDRAFT_40608 - muc2_humanmucin-2 precursor (intestinal mucin-2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40608
PHATRDRAFT_40611 copia protein (gag-int-pol protein)

PHATRDRAFT_40611 - copia protein (gag-int-pol protein)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40611
PHATRDRAFT_40624

PHATRDRAFT_40624 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40624
PHATRDRAFT_40625

PHATRDRAFT_40625 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40625
PHATRDRAFT_41458

PHATRDRAFT_41458 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41458
PHATRDRAFT_41578

PHATRDRAFT_41578 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41578
PHATRDRAFT_41582

PHATRDRAFT_41582 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41582
PHATRDRAFT_44269

PHATRDRAFT_44269 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44269
PHATRDRAFT_47869 primary mesenchyme specific protein msp130-related-2

PHATRDRAFT_47869 - primary mesenchyme specific protein msp130-related-2

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47869
PHATRDRAFT_48356 conserved repeat domain protein

PHATRDRAFT_48356 - conserved repeat domain protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48356
PHATRDRAFT_49758

PHATRDRAFT_49758 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49758
PHATRDRAFT_49959

PHATRDRAFT_49959 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49959
PHATRDRAFT_50643

PHATRDRAFT_50643 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50643
PHATRDRAFT_52461

PHATRDRAFT_52461 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_52461
GO ID Go Term p-value q-value Cluster
GO:0006310 DNA recombination 0.00000000591 0.0000137 Phatr_bicluster_0206
GO:0006511 ubiquitin-dependent protein catabolic process 0.00886476 1 Phatr_bicluster_0206
GO:0015986 ATP synthesis coupled proton transport 0.0793752 1 Phatr_bicluster_0206
GO:0007242 intracellular signaling cascade 0.0896601 1 Phatr_bicluster_0206
GO:0006508 proteolysis and peptidolysis 0.401138 1 Phatr_bicluster_0206
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