Thaps_bicluster_0285 Residual: 0.31
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_0285 0.31 Thalassiosira pseudonana
" class="views-fluidgrid-wrapper clear-block">
Displaying 1 - 31 of 31
" class="views-fluidgrid-wrapper clear-block">
10984 hypothetical protein

10984 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10984
12207 hypothetical protein

12207 - hypothetical protein

GO Terms:

GO:0003899, GO:0003900, GO:0003901, GO:0003902

CD Domains:

Go To Gene Page:

12207
14971 DSPn

14971 - DSPn

GO Terms:

GO:0004725, GO:0006470, GO:0008138, GO:0004721

CD Domains:

Go To Gene Page:

14971
1716 hypothetical protein

1716 - hypothetical protein

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

1716
17860 Abhydrolase_5

17860 - Abhydrolase_5

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

17860
21237 hypothetical protein

21237 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21237
21414 hypothetical protein

21414 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21414
21820 hypothetical protein

21820 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21820
21880 hypothetical protein

21880 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21880
22338 hypothetical protein

22338 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22338
22391 alpha_CA superfamily

22391 - alpha_CA superfamily

GO Terms:

GO:0004089, GO:0006730, GO:0008270

CD Domains:

Go To Gene Page:

22391
22702 hypothetical protein

22702 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22702
23039 hypothetical protein

23039 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23039
23253 hypothetical protein

23253 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

23253
24698 hypothetical protein

24698 - hypothetical protein

GO Terms:

GO:0003899, GO:0003900, GO:0003901, GO:0003902

CD Domains:

Go To Gene Page:

24698
25618 hypothetical protein

25618 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25618
262217 hypothetical protein

262217 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

262217
264018 hypothetical protein

264018 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

264018
264048 proline rich protein kinase like protein

264048 - proline rich protein kinase like protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

264048
2641 DOMON_DOH

2641 - DOMON_DOH

GO Terms:

GO:0004812, GO:0005524, GO:0006418

CD Domains:

Go To Gene Page:

2641
3001 hypothetical protein

3001 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3001
3629 UCH

3629 - UCH

GO Terms:

GO:0004197, GO:0004221, GO:0006511

CD Domains:

Go To Gene Page:

3629
4184 FG-GAP_2

4184 - FG-GAP_2

GO Terms:

GO:0007155, GO:0007160, GO:0008305, GO:0004339

CD Domains:

Go To Gene Page:

4184
4732 hypothetical protein

4732 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4732
5121 hypothetical protein

5121 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5121
5361 hypothetical protein

5361 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5361
7123 REX4_like

7123 - REX4_like

GO Terms:

GO:0004527, GO:0005622, GO:0004535

CD Domains:

Go To Gene Page:

7123
8217 hypothetical protein

8217 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

8217
9180 hypothetical protein

9180 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

9180
9502 hypothetical protein

9502 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9502
GO ID Go Term p-value q-value Cluster
GO:0006470 protein amino acid dephosphorylation 0.000573953 1 Thaps_bicluster_0285
GO:0006730 one-carbon compound metabolism 0.0100926 1 Thaps_bicluster_0285
GO:0007160 cell-matrix adhesion 0.025776 1 Thaps_bicluster_0285
GO:0007155 cell adhesion 0.0426418 1 Thaps_bicluster_0285
GO:0006511 ubiquitin-dependent protein catabolism 0.0715551 1 Thaps_bicluster_0285
GO:0006418 tRNA aminoacylation for protein translation 0.0796772 1 Thaps_bicluster_0285
Log in to post comments