Thaps_bicluster_0104 Residual: 0.31
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_0104 0.31 Thalassiosira pseudonana
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Displaying 1 - 24 of 24
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10088 hypothetical protein

10088 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10088
10414 FAD_binding_7 superfamily

10414 - FAD_binding_7 superfamily

GO Terms:

GO:0003904, GO:0006281

CD Domains:

Go To Gene Page:

10414
12037 hypothetical protein

12037 - hypothetical protein

GO Terms:

GO:0003910

CD Domains:

Go To Gene Page:

12037
12234 Carboxyl_trans

12234 - Carboxyl_trans

GO Terms:

GO:0016874, GO:0005524, GO:0008152

CD Domains:

Go To Gene Page:

12234
20563 hypothetical protein

20563 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20563
21604 Abhydrolase_3

21604 - Abhydrolase_3

GO Terms:

NA

CD Domains:

Go To Gene Page:

21604
22650 17beta-HSD1_like_SDR_c

22650 - 17beta-HSD1_like_SDR_c

GO Terms:

GO:0004812, GO:0005524, GO:0006418, GO:0008152, GO:0016491, GO:0000252, GO:0000253, GO:0004448, GO:0004495, GO:0008875, GO:0016229, GO:0016616, GO:0018451, GO:0018452, GO:0018453, GO:0048258

CD Domains:

Go To Gene Page:

22650
25891 Lipase_3

25891 - Lipase_3

GO Terms:

GO:0004806, GO:0006629, GO:0003824

CD Domains:

Go To Gene Page:

25891
263937 Glyco_hydrolase_16 superfamily

263937 - Glyco_hydrolase_16 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

263937
264285 crotonase-like

264285 - crotonase-like

GO Terms:

GO:0003824, GO:0008152, GO:0004300

CD Domains:

Go To Gene Page:

264285
264782 DUF4281

264782 - DUF4281

GO Terms:

NA

CD Domains:

Go To Gene Page:

264782
268208 HAD_2

268208 - HAD_2

GO Terms:

GO:0003824, GO:0008152

CD Domains:

Go To Gene Page:

268208
2936 LPLAT_AGPAT-like

2936 - LPLAT_AGPAT-like

GO Terms:

GO:0008152, GO:0008415

CD Domains:

Go To Gene Page:

2936
3258 PSII_Pbs27

3258 - PSII_Pbs27

GO Terms:

NA

CD Domains:

Go To Gene Page:

3258
3379 hypothetical protein

3379 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3379
3435 Rotamase

3435 - Rotamase

GO Terms:

GO:0016853, GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

3435
35005 crypto_DASH

35005 - crypto_DASH

GO Terms:

GO:0003913, GO:0006281, GO:0003904

CD Domains:

Go To Gene Page:

35005
4737 hypothetical protein

4737 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4737
5715 AhpC-TSA_2

5715 - AhpC-TSA_2

GO Terms:

NA

CD Domains:

Go To Gene Page:

5715
5945 AarF

5945 - AarF

GO Terms:

GO:0004672, GO:0005524, GO:0006468

CD Domains:

Go To Gene Page:

5945
7512 hypothetical protein

7512 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7512
7740 hypothetical protein

7740 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7740
8014 hypothetical protein

8014 - hypothetical protein

GO Terms:

GO:0005509, GO:0005576

CD Domains:

Go To Gene Page:

8014
907 hypothetical protein

907 - hypothetical protein

GO Terms:

GO:0016787

CD Domains:

Go To Gene Page:

907
GO ID Go Term p-value q-value Cluster
GO:0006281 DNA repair 0.00379335 1 Thaps_bicluster_0104
GO:0006629 lipid metabolism 0.0584155 1 Thaps_bicluster_0104
GO:0008152 metabolism 0.000726612 1 Thaps_bicluster_0104
GO:0006468 protein amino acid phosphorylation 0.362866 1 Thaps_bicluster_0104
GO:0006418 tRNA aminoacylation for protein translation 0.111884 1 Thaps_bicluster_0104
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