Thaps_bicluster_0145 Residual: 0.29
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_0145 0.29 Thalassiosira pseudonana
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Displaying 1 - 28 of 28
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11054 hypothetical protein

11054 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11054
11655 hypothetical protein

11655 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11655
11974 Rav1p_C superfamily

11974 - Rav1p_C superfamily

GO Terms:

GO:0007242, GO:0005515, GO:0004339

CD Domains:

Go To Gene Page:

11974
12090 hypothetical protein

12090 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12090
13740 DUF221 superfamily

13740 - DUF221 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

13740
1527 hypothetical protein

1527 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1527
18089 Thioredoxin_like superfamily

18089 - Thioredoxin_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

18089
21130 hypothetical protein

21130 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21130
21504 hypothetical protein

21504 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21504
22862 hypothetical protein

22862 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22862
23364 hypothetical protein

23364 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23364
2632 hypothetical protein

2632 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2632
269257 Peptidases_S8_Subtilisin_subset

269257 - Peptidases_S8_Subtilisin_subset

GO Terms:

GO:0004289, GO:0006508, GO:0004182

CD Domains:

Go To Gene Page:

269257
3021 TAF6

3021 - TAF6

GO Terms:

GO:0003700, GO:0005634, GO:0051090

CD Domains:

Go To Gene Page:

3021
3058 WD40 superfamily

3058 - WD40 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

3058
3241 hypothetical protein

3241 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3241
34672 Sm_E

34672 - Sm_E

GO Terms:

GO:0005634, GO:0005732, GO:0006397, GO:0030529

CD Domains:

Go To Gene Page:

34672
37137 HTH_XRE

37137 - HTH_XRE

GO Terms:

GO:0003677

CD Domains:

Go To Gene Page:

37137
3848 BKR_SDR_c

3848 - BKR_SDR_c

GO Terms:

GO:0008152, GO:0016491, GO:0004316

CD Domains:

Go To Gene Page:

3848
5664 hypothetical protein

5664 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5664
5672 HA

5672 - HA

GO Terms:

NA

CD Domains:

Go To Gene Page:

5672
5927 UBQ superfamily

5927 - UBQ superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

5927
5944 hypothetical protein

5944 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5944
7376 hypothetical protein

7376 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7376
7423 hypothetical protein

7423 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7423
8692 hypothetical protein

8692 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8692
8779 Ras_like_GTPase superfamily

8779 - Ras_like_GTPase superfamily

GO Terms:

GO:0005525, GO:0007264, GO:0006886, GO:0015031, GO:0003924, GO:0003925

CD Domains:

Go To Gene Page:

8779
9727 DUF4200

9727 - DUF4200

GO Terms:

NA

CD Domains:

Go To Gene Page:

9727
GO ID Go Term p-value q-value Cluster
GO:0051090 regulation of transcription factor activity 0.00186066 1 Thaps_bicluster_0145
GO:0006633 fatty acid biosynthetic process 0.00371824 1 Thaps_bicluster_0145
GO:0006397 mRNA processing 0.0402303 1 Thaps_bicluster_0145
GO:0007264 small GTPase mediated signal transduction 0.061562 1 Thaps_bicluster_0145
GO:0007242 intracellular signaling cascade 0.075548 1 Thaps_bicluster_0145
GO:0015031 protein transport 0.0772831 1 Thaps_bicluster_0145
GO:0006886 intracellular protein transport 0.0961797 1 Thaps_bicluster_0145
GO:0006508 proteolysis and peptidolysis 0.424754 1 Thaps_bicluster_0145
GO:0008152 metabolism 0.546944 1 Thaps_bicluster_0145
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