Thaps_bicluster_0219 Residual: 0.41
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_0219 0.41 Thalassiosira pseudonana
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Displaying 1 - 32 of 32
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16607 PcbC

16607 - PcbC

GO Terms:

NA

CD Domains:

Go To Gene Page:

16607
17579 zf-CHY

17579 - zf-CHY

GO Terms:

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

CD Domains:

Go To Gene Page:

17579
20728 hypothetical protein

20728 - hypothetical protein

GO Terms:

GO:0003779

CD Domains:

Go To Gene Page:

20728
2092 (MYB13) Thioredoxin_like superfamily

2092 - (MYB13) Thioredoxin_like superfamily

GO Terms:

GO:0003677, GO:0005634, GO:0005489, GO:0006118

CD Domains:

Go To Gene Page:

2092
20953 Tryp_SPc

20953 - Tryp_SPc

GO Terms:

GO:0004295, GO:0006508, GO:0004263, GO:0008152, GO:0016491

CD Domains:

Go To Gene Page:

20953
21653 hypothetical protein

21653 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

21653
22266 hypothetical protein

22266 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22266
22971 hypothetical protein

22971 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22971
23481 hypothetical protein

23481 - hypothetical protein

GO Terms:

GO:0008146

CD Domains:

Go To Gene Page:

23481
23565 hypothetical protein

23565 - hypothetical protein

GO Terms:

GO:0005515, GO:0003910

CD Domains:

Go To Gene Page:

23565
23694 hypothetical protein

23694 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23694
23939 MORN superfamily

23939 - MORN superfamily

GO Terms:

GO:0003700, GO:0005622, GO:0006355

CD Domains:

Go To Gene Page:

23939
24078 hypothetical protein

24078 - hypothetical protein

GO Terms:

GO:0003677, GO:0006355, GO:0004308

CD Domains:

Go To Gene Page:

24078
24098 hypothetical protein

24098 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24098
24523 hypothetical protein

24523 - hypothetical protein

GO Terms:

GO:0005576, GO:0006030, GO:0008061

CD Domains:

Go To Gene Page:

24523
25072 hypothetical protein

25072 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25072
261569 RRM3_CELF1-6

261569 - RRM3_CELF1-6

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

261569
262148 Cyt-b5

262148 - Cyt-b5

GO Terms:

NA

CD Domains:

Go To Gene Page:

262148
262149 Cyt-b5

262149 - Cyt-b5

GO Terms:

NA

CD Domains:

Go To Gene Page:

262149
262644 hypothetical protein

262644 - hypothetical protein

GO Terms:

GO:0005576, GO:0006030, GO:0008061

CD Domains:

Go To Gene Page:

262644
263301 Chitin_synth_C

263301 - Chitin_synth_C

GO Terms:

GO:0016758, GO:0004100

CD Domains:

Go To Gene Page:

263301
267946 hypothetical protein

267946 - hypothetical protein

GO Terms:

GO:0008757

CD Domains:

Go To Gene Page:

267946
31069 S_TKc

31069 - S_TKc

GO Terms:

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

CD Domains:

Go To Gene Page:

31069
34043 PKc_like superfamily

34043 - PKc_like superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

34043
41328 hypothetical protein

41328 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

41328
6511 hypothetical protein

6511 - hypothetical protein

GO Terms:

GO:0006508, GO:0008237, GO:0008270

CD Domains:

Go To Gene Page:

6511
6734 hypothetical protein

6734 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

6734
7256 hypothetical protein

7256 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7256
7845 hypothetical protein

7845 - hypothetical protein

GO Terms:

GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

7845
7973 hypothetical protein

7973 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7973
8147 hypothetical protein

8147 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8147
8552 hypothetical protein

8552 - hypothetical protein

GO Terms:

GO:0005524, GO:0015986, GO:0016469, GO:0046933, GO:0046961, GO:0000285

CD Domains:

Go To Gene Page:

8552
GO ID Go Term p-value q-value Cluster
GO:0006030 chitin metabolism 0.00115438 1 Thaps_bicluster_0219
GO:0006468 protein amino acid phosphorylation 0.0953042 1 Thaps_bicluster_0219
GO:0015986 ATP synthesis coupled proton transport 0.108453 1 Thaps_bicluster_0219
GO:0006508 proteolysis and peptidolysis 0.157438 1 Thaps_bicluster_0219
GO:0006355 regulation of transcription, DNA-dependent 0.174355 1 Thaps_bicluster_0219
GO:0016567 protein ubiquitination 0.179494 1 Thaps_bicluster_0219
GO:0006118 electron transport 0.493154 1 Thaps_bicluster_0219
GO:0008152 metabolism 0.652155 1 Thaps_bicluster_0219
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