Thaps_bicluster_0206 Residual: 0.21
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_0206 0.21 Thalassiosira pseudonana
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Displaying 1 - 16 of 16
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10133 hypothetical protein

10133 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10133
10286 hypothetical protein

10286 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10286
10295 hypothetical protein

10295 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10295
1054 hypothetical protein

1054 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1054
10641 hypothetical protein

10641 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10641
1305 hypothetical protein

1305 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1305
2053 hypothetical protein

2053 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2053
264191 WD40 superfamily

264191 - WD40 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

264191
36420 PLN03128

36420 - PLN03128

GO Terms:

GO:0003677, GO:0003918, GO:0005524, GO:0006259, GO:0006265, GO:0005634

CD Domains:

Go To Gene Page:

36420
3882 hypothetical protein

3882 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3882
4653 hypothetical protein

4653 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4653
6004 hypothetical protein

6004 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

6004
7024 PLDc_PMFPLD_like_1

7024 - PLDc_PMFPLD_like_1

GO Terms:

GO:0003824, GO:0008152

CD Domains:

Go To Gene Page:

7024
8926 MDR8

8926 - MDR8

GO Terms:

GO:0003779, GO:0008270, GO:0016491, GO:0008152, GO:0051341

CD Domains:

Go To Gene Page:

8926
9367 hypothetical protein

9367 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9367
9764 hypothetical protein

9764 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9764
GO ID Go Term p-value q-value Cluster
GO:0006265 DNA topological change 0.0102986 1 Thaps_bicluster_0206
GO:0006259 DNA metabolism 0.0143942 1 Thaps_bicluster_0206
GO:0051341 regulation of oxidoreductase activity 0.0235597 1 Thaps_bicluster_0206
GO:0008152 metabolism 0.0595321 1 Thaps_bicluster_0206
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