Thaps_bicluster_0264 Residual: 0.37
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_0264 0.37 Thalassiosira pseudonana
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Displaying 1 - 27 of 27
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11594 DUF2042 superfamily

11594 - DUF2042 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

11594
12104 IF-2B superfamily

12104 - IF-2B superfamily

GO Terms:

GO:0003743, GO:0005525, GO:0005851, GO:0006413

CD Domains:

Go To Gene Page:

12104
21411 hypothetical protein

21411 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21411
21893 CysPc

21893 - CysPc

GO Terms:

GO:0004198, GO:0005622, GO:0006508, GO:0004197, GO:0016946

CD Domains:

Go To Gene Page:

21893
22524 hypothetical protein

22524 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22524
22549 hypothetical protein

22549 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22549
22935 hypothetical protein

22935 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22935
23051 hypothetical protein

23051 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23051
23366 hypothetical protein

23366 - hypothetical protein

GO Terms:

GO:0004568, GO:0008843

CD Domains:

Go To Gene Page:

23366
24829 Ubox

24829 - Ubox

GO Terms:

GO:0000151, GO:0004842, GO:0016567

CD Domains:

Go To Gene Page:

24829
25087 hypothetical protein

25087 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25087
25224 ATG13 superfamily

25224 - ATG13 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

25224
260816 DAGK_acc superfamily

260816 - DAGK_acc superfamily

GO Terms:

GO:0004143, GO:0007205

CD Domains:

Go To Gene Page:

260816
261631 PAS_9

261631 - PAS_9

GO Terms:

GO:0004871, GO:0007165

CD Domains:

Go To Gene Page:

261631
262863 BAR_SNX

262863 - BAR_SNX

GO Terms:

GO:0007242

CD Domains:

Go To Gene Page:

262863
263480 COG4770

263480 - COG4770

GO Terms:

GO:0009374, GO:0005524, GO:0008152, GO:0016874, GO:0004658

CD Domains:

Go To Gene Page:

263480
2923 hypothetical protein

2923 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2923
32139 hypothetical protein

32139 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

32139
3266 Glu_cyclase_2 superfamily

3266 - Glu_cyclase_2 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

3266
36337 Vps35 superfamily

36337 - Vps35 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

36337
3922 hypothetical protein

3922 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3922
4909 hypothetical protein

4909 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4909
6558 hypothetical protein

6558 - hypothetical protein

GO Terms:

GO:0000151, GO:0004842, GO:0008270, GO:0016567

CD Domains:

Go To Gene Page:

6558
8415 P4Hc

8415 - P4Hc

GO Terms:

GO:0016706, GO:0019538

CD Domains:

Go To Gene Page:

8415
9364 hypothetical protein

9364 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9364
9677 hypothetical protein

9677 - hypothetical protein

GO Terms:

GO:0000287, GO:0008152, GO:0016462

CD Domains:

Go To Gene Page:

9677
GO ID Go Term p-value q-value Cluster
GO:0007205 protein kinase C activation 0.00680831 1 Thaps_bicluster_0264
GO:0016567 protein ubiquitination 0.0131675 1 Thaps_bicluster_0264
GO:0006413 translational initiation 0.053299 1 Thaps_bicluster_0264
GO:0007165 signal transduction 0.0873827 1 Thaps_bicluster_0264
GO:0007242 intracellular signaling cascade 0.0915638 1 Thaps_bicluster_0264
GO:0019538 protein metabolism 0.0998737 1 Thaps_bicluster_0264
GO:0008152 metabolism 0.235335 1 Thaps_bicluster_0264
GO:0006810 transport 0.347574 1 Thaps_bicluster_0264
GO:0006508 proteolysis and peptidolysis 0.491343 1 Thaps_bicluster_0264
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