Thaps_bicluster_0067 Residual: 0.47
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_0067 0.47 Thalassiosira pseudonana
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Displaying 1 - 25 of 25
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10143 hypothetical protein

10143 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10143
11214 SOUL

11214 - SOUL

GO Terms:

NA

CD Domains:

Go To Gene Page:

11214
1599 hypothetical protein

1599 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1599
17673 DUF4033

17673 - DUF4033

GO Terms:

NA

CD Domains:

Go To Gene Page:

17673
1884 hypothetical protein

1884 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

1884
1937 hypothetical protein

1937 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1937
20784 hypothetical protein

20784 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20784
22494 COG0384

22494 - COG0384

GO Terms:

GO:0003824, GO:0009058

CD Domains:

Go To Gene Page:

22494
22703 hypothetical protein

22703 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

22703
24549 hypothetical protein

24549 - hypothetical protein

GO Terms:

GO:0005509, GO:0004866

CD Domains:

Go To Gene Page:

24549
262637 P4Hc

262637 - P4Hc

GO Terms:

GO:0016706, GO:0019538

CD Domains:

Go To Gene Page:

262637
263660 (LAT1_1) LPLAT_AGPAT-like

263660 - (LAT1_1) LPLAT_AGPAT-like

GO Terms:

GO:0008152, GO:0008415, GO:0003841

CD Domains:

Go To Gene Page:

263660
264603 SEC14

264603 - SEC14

GO Terms:

NA

CD Domains:

Go To Gene Page:

264603
270376 hypothetical protein

270376 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270376
27048 TM_PBP1_branched-chain-AA_like superfamily

27048 - TM_PBP1_branched-chain-AA_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

27048
28125 PLN00203

28125 - PLN00203

GO Terms:

GO:0006779, GO:0008883

CD Domains:

Go To Gene Page:

28125
30924 NAD_binding_5 superfamily

30924 - NAD_binding_5 superfamily

GO Terms:

GO:0004512, GO:0006021, GO:0008654

CD Domains:

Go To Gene Page:

30924
3186 hypothetical protein

3186 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3186
35464 Nth

35464 - Nth

GO Terms:

GO:0003677, GO:0006284, GO:0003906

CD Domains:

Go To Gene Page:

35464
37725 Coq4 superfamily

37725 - Coq4 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

37725
4710 KefB

4710 - KefB

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

4710
5959 hypothetical protein

5959 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5959
8329 GH_J

8329 - GH_J

GO Terms:

NA

CD Domains:

Go To Gene Page:

8329
8409 hypothetical protein

8409 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8409
9436 2OG-FeII_Oxy_3

9436 - 2OG-FeII_Oxy_3

GO Terms:

GO:0016706, GO:0019538

CD Domains:

Go To Gene Page:

9436
GO ID Go Term p-value q-value Cluster
GO:0019538 protein metabolism 0.00238909 1 Thaps_bicluster_0067
GO:0006021 myo-inositol biosynthesis 0.00330544 1 Thaps_bicluster_0067
GO:0006284 base-excision repair 0.00988766 1 Thaps_bicluster_0067
GO:0006779 porphyrin biosynthesis 0.0180619 1 Thaps_bicluster_0067
GO:0008654 phospholipid biosynthesis 0.0229381 1 Thaps_bicluster_0067
GO:0009058 biosynthesis 0.0874873 1 Thaps_bicluster_0067
GO:0008152 metabolism 0.505245 1 Thaps_bicluster_0067
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