Thaps_bicluster_0172 Residual: 0.30
Thalassiosira pseudonana

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
Thaps_bicluster_0172 0.30 Thalassiosira pseudonana
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Displaying 1 - 16 of 16
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11530 DUF1365 superfamily

11530 - DUF1365 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

11530
15464 PCI

15464 - PCI

GO Terms:

NA

CD Domains:

Go To Gene Page:

15464
22248 PLN00162

22248 - PLN00162

GO Terms:

GO:0008152, GO:0016491, GO:0005515, GO:0006886, GO:0006888, GO:0030127

CD Domains:

Go To Gene Page:

22248
24932 Thioredoxin_like superfamily

24932 - Thioredoxin_like superfamily

GO Terms:

GO:0005489, GO:0006118, GO:0003756

CD Domains:

Go To Gene Page:

24932
260799 Peptidase_M76

260799 - Peptidase_M76

GO Terms:

GO:0006508, GO:0008237, GO:0008270

CD Domains:

Go To Gene Page:

260799
261126 DadA

261126 - DadA

GO Terms:

GO:0008718

CD Domains:

Go To Gene Page:

261126
34158 DUF336 superfamily

34158 - DUF336 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

34158
3621 hypothetical protein

3621 - hypothetical protein

GO Terms:

GO:0005509, GO:0003677

CD Domains:

Go To Gene Page:

3621
36459 PLN02584

36459 - PLN02584

GO Terms:

NA

CD Domains:

Go To Gene Page:

36459
38449 hypothetical protein

38449 - hypothetical protein

GO Terms:

GO:0004364

CD Domains:

Go To Gene Page:

38449
4357 hypothetical protein

4357 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4357
4981 Rhomboid superfamily

4981 - Rhomboid superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

4981
6472 hypothetical protein

6472 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6472
8122 hypothetical protein

8122 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8122
8333 hypothetical protein

8333 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8333
9065 hypothetical protein

9065 - hypothetical protein

GO Terms:

GO:0003677

CD Domains:

Go To Gene Page:

9065
GO ID Go Term p-value q-value Cluster
GO:0006888 ER to Golgi transport 0.00618938 1 Thaps_bicluster_0172
GO:0006886 intracellular protein transport 0.0546093 1 Thaps_bicluster_0172
GO:0006118 electron transport 0.24643 1 Thaps_bicluster_0172
GO:0006508 proteolysis and peptidolysis 0.264399 1 Thaps_bicluster_0172
GO:0008152 metabolism 0.355748 1 Thaps_bicluster_0172
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