Thaps_bicluster_0280 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_0280 0.36 Thalassiosira pseudonana
Displaying 1 - 27 of 27
10340 hypothetical protein

10340 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10340
11693 tRNA_SAD superfamily

11693 - tRNA_SAD superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

11693
16507 PLN02824

16507 - PLN02824

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

16507
19435 PTZ00184

19435 - PTZ00184

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

19435
20622 PRK11728 superfamily

20622 - PRK11728 superfamily

GO Terms:

GO:0006118, GO:0016491, GO:0019145

CD Domains:

Go To Gene Page:

20622
2107 hypothetical protein

2107 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2107
21421 hypothetical protein

21421 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21421
21603 hypothetical protein

21603 - hypothetical protein

GO Terms:

GO:0004630

CD Domains:

Go To Gene Page:

21603
21753 hypothetical protein

21753 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21753
21771 hypothetical protein

21771 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21771
22521 hypothetical protein

22521 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22521
22850 DUF4239

22850 - DUF4239

GO Terms:

NA

CD Domains:

Go To Gene Page:

22850
2293 hypothetical protein

2293 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2293
24197 hypothetical protein

24197 - hypothetical protein

GO Terms:

GO:0005515

CD Domains:

Go To Gene Page:

24197
25016 ALDH-SF superfamily

25016 - ALDH-SF superfamily

GO Terms:

GO:0008152, GO:0016491

CD Domains:

Go To Gene Page:

25016
261228 Robl_LC7

261228 - Robl_LC7

GO Terms:

NA

CD Domains:

Go To Gene Page:

261228
30846 DUF2997

30846 - DUF2997

GO Terms:

NA

CD Domains:

Go To Gene Page:

30846
31232 (PFK1) PFK superfamily

31232 - (PFK1) PFK superfamily

GO Terms:

GO:0003872, GO:0005945, GO:0006096, GO:0047334

CD Domains:

Go To Gene Page:

31232
3387 hypothetical protein

3387 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3387
34511 PRK05862

34511 - PRK05862

GO Terms:

GO:0003824, GO:0008152, GO:0004300

CD Domains:

Go To Gene Page:

34511
4121 hypothetical protein

4121 - hypothetical protein

GO Terms:

GO:0008080

CD Domains:

Go To Gene Page:

4121
5291 hypothetical protein

5291 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5291
7029 SET

7029 - SET

GO Terms:

NA

CD Domains:

Go To Gene Page:

7029
7140 Ifi-6-16

7140 - Ifi-6-16

GO Terms:

GO:0009613

CD Domains:

Go To Gene Page:

7140
7977 hypothetical protein

7977 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7977
8347 hypothetical protein

8347 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8347
8675 DUF4336 superfamily

8675 - DUF4336 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

8675
GO ID Go Term p-value q-value Cluster
GO:0009613 response to pest, pathogen or parasite 0.00927255 1 Thaps_bicluster_0280
GO:0006096 glycolysis 0.0376815 1 Thaps_bicluster_0280
GO:0008152 metabolism 0.0595321 1 Thaps_bicluster_0280
GO:0006118 electron transport 0.24643 1 Thaps_bicluster_0280
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