Thaps_bicluster_0207 Residual: 0.30
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_0207 0.30 Thalassiosira pseudonana
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Displaying 1 - 27 of 27
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10181 hypothetical protein

10181 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10181
11420 hypothetical protein

11420 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11420
11559 hypothetical protein

11559 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11559
12162 hypothetical protein

12162 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12162
12168 hypothetical protein

12168 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12168
12193 hypothetical protein

12193 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12193
12196 hypothetical protein

12196 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12196
12197 hypothetical protein

12197 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12197
23656 (Tp_AP2-EREBP7) regulator [Rayko]

23656 - (Tp_AP2-EREBP7) regulator [Rayko]

GO Terms:

GO:0003700, GO:0005634, GO:0006355

CD Domains:

Go To Gene Page:

23656
26082 SRP1

26082 - SRP1

GO Terms:

NA

CD Domains:

Go To Gene Page:

26082
31391 KISc

31391 - KISc

GO Terms:

GO:0003777, GO:0005524, GO:0005875, GO:0007018

CD Domains:

Go To Gene Page:

31391
3183 PTZ00018

3183 - PTZ00018

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

3183
33270 PLN00157

33270 - PLN00157

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

33270
34210 PLN00158

34210 - PLN00158

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

34210
35279 (H4_2) H4

35279 - (H4_2) H4

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

35279
36811 PTZ00018

36811 - PTZ00018

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

36811
37309 PLN00158

37309 - PLN00158

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

37309
37357 H4

37357 - H4

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

37357
37431 PLN00157

37431 - PLN00157

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

37431
37432 PTZ00018

37432 - PTZ00018

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

37432
4261 hypothetical protein

4261 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4261
5018 STKc_MAPK

5018 - STKc_MAPK

GO Terms:

GO:0004672, GO:0005524, GO:0006468, GO:0004713, GO:0004674, GO:0004707

CD Domains:

Go To Gene Page:

5018
6947 PLN00158

6947 - PLN00158

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

6947
6948 PLN00157

6948 - PLN00157

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

6948
9067 (H4_1) H4

9067 - (H4_1) H4

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

9067
9991 hypothetical protein

9991 - hypothetical protein

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334

CD Domains:

Go To Gene Page:

9991
9992 H15

9992 - H15

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

9992
GO ID Go Term p-value q-value Cluster
GO:0006334 nucleosome assembly 8.47e-25 2.35e-21 Thaps_bicluster_0207
GO:0007001 chromosome organization and biogenesis (sensu Eukaryota) 6.15e-23 1.71e-19 Thaps_bicluster_0207
GO:0007018 microtubule-based movement 0.235625 1 Thaps_bicluster_0207
GO:0006468 protein amino acid phosphorylation 0.742103 1 Thaps_bicluster_0207
GO:0006355 regulation of transcription, DNA-dependent 0.861003 1 Thaps_bicluster_0207
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