Thaps_bicluster_0210 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_0210 0.31 Thalassiosira pseudonana
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Displaying 1 - 19 of 19
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11111 DUF383 superfamily

11111 - DUF383 superfamily

GO Terms:

GO:0006350, GO:0006952, GO:0003917

CD Domains:

Go To Gene Page:

11111
20960 hypothetical protein

20960 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20960
21422 hypothetical protein

21422 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21422
21971 hypothetical protein

21971 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21971
22045 (Tp_CCHH10) regulator [Rayko]

22045 - (Tp_CCHH10) regulator [Rayko]

GO Terms:

GO:0003676, GO:0005634, GO:0008270

CD Domains:

Go To Gene Page:

22045
2237 hypothetical protein

2237 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2237
23300 hypothetical protein

23300 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23300
23490 Alpha_kinase

23490 - Alpha_kinase

GO Terms:

GO:0004674, GO:0005524, GO:0006468

CD Domains:

Go To Gene Page:

23490
262731 hypothetical protein

262731 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

262731
263046 HA

263046 - HA

GO Terms:

NA

CD Domains:

Go To Gene Page:

263046
263463 (Tp_Hox6b) regulator [Rayko]

263463 - (Tp_Hox6b) regulator [Rayko]

GO Terms:

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

CD Domains:

Go To Gene Page:

263463
3315 hypothetical protein

3315 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3315
34357 Fcf2

34357 - Fcf2

GO Terms:

NA

CD Domains:

Go To Gene Page:

34357
35584 AANH_like superfamily

35584 - AANH_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

35584
38361 HMGB-UBF_HMG-box

38361 - HMGB-UBF_HMG-box

GO Terms:

GO:0003677, GO:0006355

CD Domains:

Go To Gene Page:

38361
5387 hypothetical protein

5387 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5387
7838 hypothetical protein

7838 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7838
8559 hypothetical protein

8559 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8559
9045 TLC superfamily

9045 - TLC superfamily

GO Terms:

GO:0005471, GO:0005524, GO:0006810, GO:0016021

CD Domains:

Go To Gene Page:

9045
GO ID Go Term p-value q-value Cluster
GO:0006952 defense response 0.00247959 1 Thaps_bicluster_0210
GO:0006350 transcription 0.0366595 1 Thaps_bicluster_0210
GO:0006355 regulation of transcription, DNA-dependent 0.0508003 1 Thaps_bicluster_0210
GO:0006810 transport 0.207702 1 Thaps_bicluster_0210
GO:0006468 protein amino acid phosphorylation 0.236888 1 Thaps_bicluster_0210
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