Thaps_bicluster_0223 Residual: 0.11
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_0223 0.11 Thalassiosira pseudonana
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Displaying 1 - 14 of 14
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22747 (Lhcr10) fucoxanthin chlorophyll a/c light-harvesting protein

22747 - (Lhcr10) fucoxanthin chlorophyll a/c light-harvesting protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22747
23808 hypothetical protein

23808 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23808
262332 Chloroa_b-bind superfamily

262332 - Chloroa_b-bind superfamily

GO Terms:

GO:0009765, GO:0016020

CD Domains:

Go To Gene Page:

262332
26246 (Lhcr3) fucoxanthin chl a/c light-harvesting protein

26246 - (Lhcr3) fucoxanthin chl a/c light-harvesting protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

26246
31749 Chloroa_b-bind superfamily

31749 - Chloroa_b-bind superfamily

GO Terms:

GO:0009765, GO:0016020

CD Domains:

Go To Gene Page:

31749
33131 Chloroa_b-bind

33131 - Chloroa_b-bind

GO Terms:

GO:0009765, GO:0016020

CD Domains:

Go To Gene Page:

33131
33606 Chloroa_b-bind superfamily

33606 - Chloroa_b-bind superfamily

GO Terms:

GO:0009765, GO:0016020

CD Domains:

Go To Gene Page:

33606
34276 Chloroa_b-bind

34276 - Chloroa_b-bind

GO Terms:

GO:0009765, GO:0016020

CD Domains:

Go To Gene Page:

34276
36081 Chloroa_b-bind

36081 - Chloroa_b-bind

GO Terms:

GO:0009765, GO:0016020

CD Domains:

Go To Gene Page:

36081
38122 Chloroa_b-bind superfamily

38122 - Chloroa_b-bind superfamily

GO Terms:

GO:0009765, GO:0016020

CD Domains:

Go To Gene Page:

38122
3816 (Lhcr7) fucoxanthin chl a/c light-harvesting protein

3816 - (Lhcr7) fucoxanthin chl a/c light-harvesting protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3816
40747 Chloroa_b-bind

40747 - Chloroa_b-bind

GO Terms:

GO:0009765, GO:0016020

CD Domains:

Go To Gene Page:

40747
4882 (Lhcr4) fucoxanthin chl a/c light-harvesting protein

4882 - (Lhcr4) fucoxanthin chl a/c light-harvesting protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4882
4883 (Lhcr14) fucoxanthin chlorophyll a/c light-harvesting protein, lhcr type

4883 - (Lhcr14) fucoxanthin chlorophyll a/c light-harvesting protein, lhcr type

GO Terms:

NA

CD Domains:

Go To Gene Page:

4883
GO ID Go Term p-value q-value Cluster
GO:0009765 photosynthesis light harvesting 1.04e-17 0.0000000000000289 Thaps_bicluster_0223
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