Thaps_bicluster_0197 Residual: 0.29
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_0197 0.29 Thalassiosira pseudonana
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Displaying 1 - 18 of 18
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10417 hypothetical protein

10417 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10417
11337 hypothetical protein

11337 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11337
1136 hypothetical protein

1136 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1136
17707 NADB_Rossmann superfamily

17707 - NADB_Rossmann superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

17707
22652 UbiH

22652 - UbiH

GO Terms:

GO:0004497, GO:0006725, GO:0006118, GO:0016491, GO:0015036, GO:0008152, GO:0016740

CD Domains:

Go To Gene Page:

22652
24343 hypothetical protein

24343 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24343
25861 TPR

25861 - TPR

GO Terms:

NA

CD Domains:

Go To Gene Page:

25861
270331 hypothetical protein

270331 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270331
33035 YGGT

33035 - YGGT

GO Terms:

GO:0016020

CD Domains:

Go To Gene Page:

33035
4821 hypothetical protein

4821 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4821
4980 TRAM_LAG1_CLN8

4980 - TRAM_LAG1_CLN8

GO Terms:

GO:0016021

CD Domains:

Go To Gene Page:

4980
5045 hypothetical protein

5045 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5045
5135 Rubis-subs-bind

5135 - Rubis-subs-bind

GO Terms:

NA

CD Domains:

Go To Gene Page:

5135
5585 hypothetical protein

5585 - hypothetical protein

GO Terms:

GO:0008318, GO:0018346

CD Domains:

Go To Gene Page:

5585
6504 CDP-OH_P_transf superfamily

6504 - CDP-OH_P_transf superfamily

GO Terms:

GO:0008654, GO:0004307

CD Domains:

Go To Gene Page:

6504
6980 hypothetical protein

6980 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6980
8720 NA

8720 - NA

GO Terms:

NA

CD Domains:

Go To Gene Page:

8720
9513 hypothetical protein

9513 - hypothetical protein

GO Terms:

GO:0006457, GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

9513
GO ID Go Term p-value q-value Cluster
GO:0018346 protein amino acid prenylation 0.00618938 1 Thaps_bicluster_0197
GO:0008654 phospholipid biosynthesis 0.0172498 1 Thaps_bicluster_0197
GO:0006725 aromatic compound metabolism 0.026995 1 Thaps_bicluster_0197
GO:0006457 protein folding 0.150875 1 Thaps_bicluster_0197
GO:0006118 electron transport 0.287914 1 Thaps_bicluster_0197
GO:0008152 metabolism 0.410014 1 Thaps_bicluster_0197
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