Thaps_bicluster_0212 Residual: 0.16
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_0212 0.16 Thalassiosira pseudonana
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Displaying 1 - 13 of 13
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10180 hypothetical protein

10180 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10180
1052 hypothetical protein

1052 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1052
24064 hypothetical protein

24064 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24064
25912 hypothetical protein

25912 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25912
261036 PLN03150

261036 - PLN03150

GO Terms:

NA

CD Domains:

Go To Gene Page:

261036
33883 CYCLIN

33883 - CYCLIN

GO Terms:

GO:0000074, GO:0005634

CD Domains:

Go To Gene Page:

33883
3482 hypothetical protein

3482 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3482
4771 hypothetical protein

4771 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4771
6330 hypothetical protein

6330 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6330
6699 hypothetical protein

6699 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6699
6773 hypothetical protein

6773 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6773
6774 hypothetical protein

6774 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6774
7087 hypothetical protein

7087 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7087
GO ID Go Term p-value q-value Cluster
GO:0000074 regulation of cell cycle 0.0124044 1 Thaps_bicluster_0212
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