Phatr_bicluster_0158 Residual: 0.25
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_0158 0.25 Phaeodactylum tricornutum
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Displaying 1 - 21 of 21
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PHATRDRAFT_16379 myosin heavy chain-like protein (MYSc)

PHATRDRAFT_16379 - myosin heavy chain-like protein (MYSc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16379
PHATRDRAFT_38879 tetratricopeptide tpr_2 (TPR_12)

PHATRDRAFT_38879 - tetratricopeptide tpr_2 (TPR_12)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38879
PHATRDRAFT_39559

PHATRDRAFT_39559 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39559
PHATRDRAFT_44214 (PHA03247)

PHATRDRAFT_40692 - (PHA03247)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40692
PHATRDRAFT_47586

PHATRDRAFT_44214 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44214
PHATRDRAFT_47587 glycine-rich cell wall structural protein precursor (partial match)

PHATRDRAFT_47586 - glycine-rich cell wall structural protein precursor (partial match)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47586
PHATRDRAFT_47727 hypothetical glycine-rich protein

PHATRDRAFT_47587 - hypothetical glycine-rich protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47587
PHATRDRAFT_47755

PHATRDRAFT_47727 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47727
PHATRDRAFT_47840

PHATRDRAFT_47755 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47755
PHATRDRAFT_48061 (UBQ superfamily)

PHATRDRAFT_47840 - (UBQ superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47840
PHATRDRAFT_48067

PHATRDRAFT_48061 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48061
PHATRDRAFT_48351

PHATRDRAFT_48067 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48067
PHATRDRAFT_48365

PHATRDRAFT_48351 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48351
PHATRDRAFT_48544 gtpase activator protein (RabGAP-TBC superfamily)

PHATRDRAFT_48365 - gtpase activator protein (RabGAP-TBC superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48365
PHATRDRAFT_48606

PHATRDRAFT_48544 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48544
PHATRDRAFT_49020

PHATRDRAFT_48606 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48606
PHATRDRAFT_49838 viral a-type inclusion (ANK)

PHATRDRAFT_49020 - viral a-type inclusion (ANK)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49020
PHATRDRAFT_49911 myb-like dna-bindingshaqkyf class family protein (SANT)

PHATRDRAFT_49838 - myb-like dna-bindingshaqkyf class family protein (SANT)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49838
PHATRDRAFT_5467

PHATRDRAFT_49911 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49911
PHATRDRAFT_6311 importin alpha 1b (ARM)

PHATRDRAFT_5467 - importin alpha 1b (ARM)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_5467

PHATRDRAFT_6311 - two component regulator three y domain protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_6311
GO ID Go Term p-value q-value Cluster
GO:0006464 protein modification 0.0155594 1 Phatr_bicluster_0158
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