Thaps_bicluster_0177 Residual: 0.33
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_0177 0.33 Thalassiosira pseudonana
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Displaying 1 - 22 of 22
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1082 hypothetical protein

1082 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1082
11639 hypothetical protein

11639 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11639
20933 hypothetical protein

20933 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20933
21563 hypothetical protein

21563 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21563
22763 DUF525 superfamily

22763 - DUF525 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

22763
23013 Trs65

23013 - Trs65

GO Terms:

NA

CD Domains:

Go To Gene Page:

23013
24227 RNR_PFL superfamily

24227 - RNR_PFL superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

24227
262412 Ptr

262412 - Ptr

GO Terms:

GO:0004222, GO:0006508, GO:0004231

CD Domains:

Go To Gene Page:

262412
264143 PP2Cc

264143 - PP2Cc

GO Terms:

GO:0003824, GO:0000158, GO:0004721, GO:0004723, GO:0004724, GO:0005963, GO:0008420, GO:0008597, GO:0015071, GO:0017018, GO:0017020, GO:0017023, GO:0030357

CD Domains:

Go To Gene Page:

264143
26702 ATPase-Plipid

26702 - ATPase-Plipid

GO Terms:

GO:0005524, GO:0006812, GO:0015662, GO:0016020, GO:0016021, GO:0016887, GO:0004012

CD Domains:

Go To Gene Page:

26702
268446 (CLPC1) clpA

268446 - (CLPC1) clpA

GO Terms:

GO:0005524, GO:0000166, GO:0017111, GO:0005515, GO:0019538, GO:0008462

CD Domains:

Go To Gene Page:

268446
31551 Aminotran_1_2

31551 - Aminotran_1_2

GO Terms:

GO:0009058, GO:0016847, GO:0016769

CD Domains:

Go To Gene Page:

31551
3874 hypothetical protein

3874 - hypothetical protein

GO Terms:

GO:0003677, GO:0005634, GO:0006355

CD Domains:

Go To Gene Page:

3874
5246 hypothetical protein

5246 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5246
5659 hypothetical protein

5659 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5659
5902 hypothetical protein

5902 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5902
6200 hypothetical protein

6200 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6200
7188 PKc_like superfamily

7188 - PKc_like superfamily

GO Terms:

GO:0004888, GO:0007275, GO:0016020, GO:0004672, GO:0005524, GO:0006468, GO:0004674

CD Domains:

Go To Gene Page:

7188
7546 COG1505

7546 - COG1505

GO Terms:

GO:0006508, GO:0008236, GO:0004287, GO:0004252

CD Domains:

Go To Gene Page:

7546
7937 CHD

7937 - CHD

GO Terms:

GO:0004871, GO:0007165, GO:0007242, GO:0009190, GO:0016849, GO:0006355, GO:0004383, GO:0008075

CD Domains:

Go To Gene Page:

7937
8775 DAP2

8775 - DAP2

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

8775
9425 TPR_12

9425 - TPR_12

GO Terms:

NA

CD Domains:

Go To Gene Page:

9425
GO ID Go Term p-value q-value Cluster
GO:0007275 development 0.00495611 1 Thaps_bicluster_0177
GO:0009190 cyclic nucleotide biosynthesis 0.0532936 1 Thaps_bicluster_0177
GO:0007165 signal transduction 0.0949469 1 Thaps_bicluster_0177
GO:0007242 intracellular signaling cascade 0.0994698 1 Thaps_bicluster_0177
GO:0006812 cation transport 0.101723 1 Thaps_bicluster_0177
GO:0019538 protein metabolism 0.108453 1 Thaps_bicluster_0177
GO:0009058 biosynthesis 0.128367 1 Thaps_bicluster_0177
GO:0006508 proteolysis and peptidolysis 0.157438 1 Thaps_bicluster_0177
GO:0006355 regulation of transcription, DNA-dependent 0.174355 1 Thaps_bicluster_0177
GO:0006468 protein amino acid phosphorylation 0.41786 1 Thaps_bicluster_0177
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