Thaps_bicluster_0183 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_0183 0.30 Thalassiosira pseudonana
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Displaying 1 - 20 of 20
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10241 hypothetical protein

10241 - hypothetical protein

GO Terms:

GO:0004289, GO:0006508

CD Domains:

Go To Gene Page:

10241
1506 hypothetical protein

1506 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1506
18469 FkpA

18469 - FkpA

GO Terms:

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

CD Domains:

Go To Gene Page:

18469
1969 hypothetical protein

1969 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1969
21250 hypothetical protein

21250 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21250
22117 hypothetical protein

22117 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22117
22140 UFD1 superfamily

22140 - UFD1 superfamily

GO Terms:

GO:0006511

CD Domains:

Go To Gene Page:

22140
22418 hypothetical protein

22418 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22418
269968 hypothetical protein

269968 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

269968
270261 hypothetical protein

270261 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270261
3257 hypothetical protein

3257 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

3257
33389 PKc_like superfamily

33389 - PKc_like superfamily

GO Terms:

GO:0004672, GO:0005524, GO:0006468, GO:0004713, GO:0004674, GO:0005952, GO:0008603

CD Domains:

Go To Gene Page:

33389
36527 hypothetical protein

36527 - hypothetical protein

GO Terms:

GO:0008168

CD Domains:

Go To Gene Page:

36527
36557 PAP_fibrillin superfamily

36557 - PAP_fibrillin superfamily

GO Terms:

GO:0005198

CD Domains:

Go To Gene Page:

36557
4722 hypothetical protein

4722 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4722
4876 hypothetical protein

4876 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4876
4888 hypothetical protein

4888 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4888
5545 hypothetical protein

5545 - hypothetical protein

GO Terms:

GO:0005515

CD Domains:

Go To Gene Page:

5545
6807 hypothetical protein

6807 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6807
8793 DUF328

8793 - DUF328

GO Terms:

NA

CD Domains:

Go To Gene Page:

8793
GO ID Go Term p-value q-value Cluster
GO:0006511 ubiquitin-dependent protein catabolism 0.0415252 1 Thaps_bicluster_0183
GO:0006457 protein folding 0.103279 1 Thaps_bicluster_0183
GO:0006468 protein amino acid phosphorylation 0.164893 1 Thaps_bicluster_0183
GO:0006508 proteolysis and peptidolysis 0.217787 1 Thaps_bicluster_0183
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