Thaps_bicluster_0149 Residual: 0.40
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_0149 0.40 Thalassiosira pseudonana
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Displaying 1 - 21 of 21
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10093 UbiH

10093 - UbiH

GO Terms:

GO:0004497, GO:0006725, GO:0006118, GO:0008152, GO:0016491, GO:0004502

CD Domains:

Go To Gene Page:

10093
11833 hypothetical protein

11833 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11833
12031 hypothetical protein

12031 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12031
1557 hypothetical protein

1557 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1557
22497 hypothetical protein

22497 - hypothetical protein

GO Terms:

GO:0006457

CD Domains:

Go To Gene Page:

22497
2488 hypothetical protein

2488 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2488
25396 YbaB_DNA_bd superfamily

25396 - YbaB_DNA_bd superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

25396
25840 CdCA1

25840 - CdCA1

GO Terms:

NA

CD Domains:

Go To Gene Page:

25840
260757 Fer4_NifH superfamily

260757 - Fer4_NifH superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

260757
260762 hypothetical protein

260762 - hypothetical protein

GO Terms:

GO:0007155

CD Domains:

Go To Gene Page:

260762
260962 RHOD superfamily

260962 - RHOD superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

260962
33911 Steroid_dh superfamily

33911 - Steroid_dh superfamily

GO Terms:

GO:0016021, GO:0004812, GO:0005524, GO:0006418

CD Domains:

Go To Gene Page:

33911
34635 hypothetical protein

34635 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

34635
5912 hypothetical protein

5912 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5912
6029 hypothetical protein

6029 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6029
6445 hypothetical protein

6445 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6445
7883 hypothetical protein

7883 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7883
8501 DUS_like_FMN

8501 - DUS_like_FMN

GO Terms:

GO:0008033, GO:0016491, GO:0050660, GO:0051341

CD Domains:

Go To Gene Page:

8501
8932 hypothetical protein

8932 - hypothetical protein

GO Terms:

GO:0004812, GO:0005524, GO:0006418, GO:0004339

CD Domains:

Go To Gene Page:

8932
9023 hypothetical protein

9023 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9023
9424 hypothetical protein

9424 - hypothetical protein

GO Terms:

GO:0006508, GO:0008237, GO:0008270

CD Domains:

Go To Gene Page:

9424
GO ID Go Term p-value q-value Cluster
GO:0006418 tRNA aminoacylation for protein translation 0.00577882 1 Thaps_bicluster_0149
GO:0008033 tRNA processing 0.0366296 1 Thaps_bicluster_0149
GO:0006725 aromatic compound metabolism 0.0446037 1 Thaps_bicluster_0149
GO:0051341 regulation of oxidoreductase activity 0.0465879 1 Thaps_bicluster_0149
GO:0007155 cell adhesion 0.0603738 1 Thaps_bicluster_0149
GO:0006457 protein folding 0.238676 1 Thaps_bicluster_0149
GO:0006118 electron transport 0.432304 1 Thaps_bicluster_0149
GO:0006508 proteolysis and peptidolysis 0.459068 1 Thaps_bicluster_0149
GO:0008152 metabolism 0.585137 1 Thaps_bicluster_0149
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