Thaps_bicluster_0077 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_0077 0.37 Thalassiosira pseudonana
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Displaying 1 - 28 of 28
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10383 hypothetical protein

10383 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10383
11268 hypothetical protein

11268 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11268
19662 hypothetical protein

19662 - hypothetical protein

GO Terms:

GO:0016192

CD Domains:

Go To Gene Page:

19662
19764 MPC superfamily

19764 - MPC superfamily

GO Terms:

GO:0005554

CD Domains:

Go To Gene Page:

19764
21053 hypothetical protein

21053 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21053
21306 hypothetical protein

21306 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21306
21376 hypothetical protein

21376 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21376
23818 hypothetical protein

23818 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23818
25601 hypothetical protein

25601 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25601
261650 RhaT

261650 - RhaT

GO Terms:

GO:0016020

CD Domains:

Go To Gene Page:

261650
262059 Glyco_tranf_GTA_type superfamily

262059 - Glyco_tranf_GTA_type superfamily

GO Terms:

GO:0008152, GO:0016779, GO:0003983

CD Domains:

Go To Gene Page:

262059
263528 hypothetical protein

263528 - hypothetical protein

GO Terms:

GO:0008270

CD Domains:

Go To Gene Page:

263528
263536 P4Hc

263536 - P4Hc

GO Terms:

GO:0016706, GO:0019538, GO:0004656, GO:0016222

CD Domains:

Go To Gene Page:

263536
264013 PLN02605

264013 - PLN02605

GO Terms:

GO:0046509

CD Domains:

Go To Gene Page:

264013
26759 NADB_Rossmann superfamily

26759 - NADB_Rossmann superfamily

GO Terms:

GO:0008152, GO:0016491, GO:0016630

CD Domains:

Go To Gene Page:

26759
269147 NAD_binding_8 superfamily

269147 - NAD_binding_8 superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

269147
26991 GRX_GRXh_1_2_like

26991 - GRX_GRXh_1_2_like

GO Terms:

GO:0005489, GO:0006118, GO:0045454

CD Domains:

Go To Gene Page:

26991
31169 PRX_BCP

31169 - PRX_BCP

GO Terms:

NA

CD Domains:

Go To Gene Page:

31169
31562 Haemolytic

31562 - Haemolytic

GO Terms:

NA

CD Domains:

Go To Gene Page:

31562
4326 hypothetical protein

4326 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4326
5470 CBS_pair superfamily

5470 - CBS_pair superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

5470
5734 hypothetical protein

5734 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5734
7280 hypothetical protein

7280 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7280
7655 hypothetical protein

7655 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7655
8836 hypothetical protein

8836 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8836
9109 hypothetical protein

9109 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9109
915 hypothetical protein

915 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

915
9274 hypothetical protein

9274 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9274
GO ID Go Term p-value q-value Cluster
GO:0045454 cell redox homeostasis 0.0166355 1 Thaps_bicluster_0077
GO:0016192 vesicle-mediated transport 0.0294036 1 Thaps_bicluster_0077
GO:0008152 metabolism 0.0338556 1 Thaps_bicluster_0077
GO:0006725 aromatic compound metabolism 0.0402303 1 Thaps_bicluster_0077
GO:0019538 protein metabolism 0.0824713 1 Thaps_bicluster_0077
GO:0006118 electron transport 0.0839917 1 Thaps_bicluster_0077
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