Thaps_bicluster_0228 Residual: 0.34
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_0228 0.34 Thalassiosira pseudonana
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Displaying 1 - 23 of 23
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10039 hypothetical protein

10039 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10039
11061 hypothetical protein

11061 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11061
11100 hypothetical protein

11100 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11100
14492 S_TKc

14492 - S_TKc

GO Terms:

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

CD Domains:

Go To Gene Page:

14492
18624 Mpv17_PMP22

18624 - Mpv17_PMP22

GO Terms:

GO:0016021

CD Domains:

Go To Gene Page:

18624
20186 DnaJ

20186 - DnaJ

GO Terms:

GO:0006457, GO:0031072, GO:0051082

CD Domains:

Go To Gene Page:

20186
20952 MscS

20952 - MscS

GO Terms:

GO:0016020

CD Domains:

Go To Gene Page:

20952
21645 hypothetical protein

21645 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21645
23503 ANK

23503 - ANK

GO Terms:

NA

CD Domains:

Go To Gene Page:

23503
23642 hypothetical protein

23642 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

23642
23692 hypothetical protein

23692 - hypothetical protein

GO Terms:

GO:0004535

CD Domains:

Go To Gene Page:

23692
24003 (Tp_HSF_2.5h) HSF_DNA-bind superfamily

24003 - (Tp_HSF_2.5h) HSF_DNA-bind superfamily

GO Terms:

GO:0003700, GO:0005634, GO:0006355, GO:0003677

CD Domains:

Go To Gene Page:

24003
24923 hypothetical protein

24923 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24923
25261 hypothetical protein

25261 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25261
25292 hypothetical protein

25292 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25292
25306 hypothetical protein

25306 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

25306
25452 hypothetical protein

25452 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25452
3196 hypothetical protein

3196 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3196
3839 hypothetical protein

3839 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3839
4411 hypothetical protein

4411 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4411
7135 hypothetical protein

7135 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7135
9958 hypothetical protein

9958 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9958
GO ID Go Term p-value q-value Cluster
GO:0016567 protein ubiquitination 0.0637659 1 Thaps_bicluster_0228
GO:0006457 protein folding 0.103279 1 Thaps_bicluster_0228
GO:0006468 protein amino acid phosphorylation 0.164893 1 Thaps_bicluster_0228
GO:0006355 regulation of transcription, DNA-dependent 0.230778 1 Thaps_bicluster_0228
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