Thaps_bicluster_0134 Residual: 0.26
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_0134 0.26 Thalassiosira pseudonana
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Displaying 1 - 15 of 15
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10002 Solute_trans_a superfamily

10002 - Solute_trans_a superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

10002
11492 hypothetical protein

11492 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11492
21094 hypothetical protein

21094 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21094
22301 (PMM1) PLN02423

22301 - (PMM1) PLN02423

GO Terms:

GO:0004615, GO:0005737, GO:0019307, GO:0003824, GO:0008152

CD Domains:

Go To Gene Page:

22301
22325 hypothetical protein

22325 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22325
25772 (ACT1) ACTIN

25772 - (ACT1) ACTIN

GO Terms:

GO:0005515, GO:0003774, GO:0005200, GO:0005884

CD Domains:

Go To Gene Page:

25772
25898 hypothetical protein

25898 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25898
25917 hypothetical protein

25917 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

25917
261826 SEC14

261826 - SEC14

GO Terms:

GO:0004725, GO:0004727

CD Domains:

Go To Gene Page:

261826
31569 (TUB3) PLN00220

31569 - (TUB3) PLN00220

GO Terms:

GO:0005525, GO:0005737, GO:0005198, GO:0005874, GO:0007018, GO:0003924, GO:0043234, GO:0051258

CD Domains:

Go To Gene Page:

31569
32661 ABC_ATPase superfamily

32661 - ABC_ATPase superfamily

GO Terms:

GO:0003684, GO:0005524, GO:0006298

CD Domains:

Go To Gene Page:

32661
4170 hypothetical protein

4170 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4170
4803 hypothetical protein

4803 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4803
5431 hypothetical protein

5431 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

5431
5867 CDC6

5867 - CDC6

GO Terms:

NA

CD Domains:

Go To Gene Page:

5867
GO ID Go Term p-value q-value Cluster
GO:0019307 mannose biosynthesis 0.0010337 1 Thaps_bicluster_0134
GO:0051258 protein polymerization 0.00824568 1 Thaps_bicluster_0134
GO:0006298 mismatch repair 0.0164369 1 Thaps_bicluster_0134
GO:0007018 microtubule-based movement 0.0436835 1 Thaps_bicluster_0134
GO:0008152 metabolism 0.355748 1 Thaps_bicluster_0134
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