Thaps_bicluster_0244 Residual: 0.36
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_0244 0.36 Thalassiosira pseudonana
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Displaying 1 - 30 of 30
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10183 hypothetical protein

10183 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10183
1022 hypothetical protein

1022 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1022
10690 hypothetical protein

10690 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10690
1116 Methyltransf_16 superfamily

1116 - Methyltransf_16 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

1116
11173 hypothetical protein

11173 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11173
11851 hypothetical protein

11851 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11851
1280 hypothetical protein

1280 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1280
17704 Peptidase_C12 superfamily

17704 - Peptidase_C12 superfamily

GO Terms:

GO:0004221, GO:0005622, GO:0006511

CD Domains:

Go To Gene Page:

17704
1934 hypothetical protein

1934 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1934
20797 Methyltransf_31

20797 - Methyltransf_31

GO Terms:

GO:0008757, GO:0008168

CD Domains:

Go To Gene Page:

20797
21282 Pyrid_oxidase_2 superfamily

21282 - Pyrid_oxidase_2 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

21282
21620 AAT_I superfamily

21620 - AAT_I superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

21620
22383 hypothetical protein

22383 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22383
2345 hypothetical protein

2345 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2345
2371 hypothetical protein

2371 - hypothetical protein

GO Terms:

GO:0005351, GO:0009401

CD Domains:

Go To Gene Page:

2371
25361 hypothetical protein

25361 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25361
263062 SodA

263062 - SodA

GO Terms:

GO:0004784, GO:0006801, GO:0046872, GO:0004785, GO:0008382, GO:0008383, GO:0016954

CD Domains:

Go To Gene Page:

263062
264361 pepN

264361 - pepN

GO Terms:

GO:0004179, GO:0006508, GO:0008237, GO:0008270

CD Domains:

Go To Gene Page:

264361
3264 hypothetical protein

3264 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3264
3308 hypothetical protein

3308 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3308
33868 EHD

33868 - EHD

GO Terms:

GO:0003924, GO:0005525, GO:0004799, GO:0050757

CD Domains:

Go To Gene Page:

33868
34265 FKBP_C

34265 - FKBP_C

GO Terms:

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

CD Domains:

Go To Gene Page:

34265
42368 (UGDH1) PLN02353

42368 - (UGDH1) PLN02353

GO Terms:

GO:0006118, GO:0003979

CD Domains:

Go To Gene Page:

42368
4503 Esterase

4503 - Esterase

GO Terms:

NA

CD Domains:

Go To Gene Page:

4503
5074 hypothetical protein

5074 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5074
6672 hypothetical protein

6672 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6672
7112 hypothetical protein

7112 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7112
8806 hypothetical protein

8806 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8806
9037 hypothetical protein

9037 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9037
9878 hypothetical protein

9878 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9878
GO ID Go Term p-value q-value Cluster
GO:0050757 thymidylate synthase biosynthesis 0.00557274 1 Thaps_bicluster_0244
GO:0006801 superoxide metabolism 0.00742418 1 Thaps_bicluster_0244
GO:0008152 metabolic process 0.0129601 1 Thaps_bicluster_0244
GO:0006508 proteolysis and peptidolysis 0.424754 1 Thaps_bicluster_0244
GO:0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system 0.0330245 1 Thaps_bicluster_0244
GO:0006511 ubiquitin-dependent protein catabolism 0.0910605 1 Thaps_bicluster_0244
GO:0006457 protein folding 0.217609 1 Thaps_bicluster_0244
GO:0006118 electron transport 0.399203 1 Thaps_bicluster_0244
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