Thaps_bicluster_0222 Residual: 0.32
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_0222 0.32 Thalassiosira pseudonana
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Displaying 1 - 28 of 28
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10434 hypothetical protein

10434 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

10434
11069 UAA

11069 - UAA

GO Terms:

NA

CD Domains:

Go To Gene Page:

11069
11186 hypothetical protein

11186 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11186
1365 hypothetical protein

1365 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1365
17008 RNase_HII_eukaryota_like

17008 - RNase_HII_eukaryota_like

GO Terms:

GO:0003723, GO:0004523, GO:0004524

CD Domains:

Go To Gene Page:

17008
19793 PLN00157

19793 - PLN00157

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

19793
20587 hypothetical protein

20587 - hypothetical protein

GO Terms:

GO:0000150, GO:0006310

CD Domains:

Go To Gene Page:

20587
20776 hypothetical protein

20776 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20776
262697 hypothetical protein

262697 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

262697
264495 hypothetical protein

264495 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

264495
264676 S_TKc

264676 - S_TKc

GO Terms:

GO:0004672, GO:0005524, GO:0006468, GO:0004713, GO:0004674, GO:0004682, GO:0004691, GO:0005952, GO:0005956, GO:0008603, GO:0008605

CD Domains:

Go To Gene Page:

264676
268078 MFS_1

268078 - MFS_1

GO Terms:

GO:0005215, GO:0006810, GO:0016021

CD Domains:

Go To Gene Page:

268078
32223 Rab18

32223 - Rab18

GO Terms:

GO:0005525, GO:0007264, GO:0006886, GO:0015031, GO:0003924, GO:0003925

CD Domains:

Go To Gene Page:

32223
3280 COG0790

3280 - COG0790

GO Terms:

NA

CD Domains:

Go To Gene Page:

3280
33109 QOR2

33109 - QOR2

GO Terms:

GO:0008270, GO:0016491, GO:0003960

CD Domains:

Go To Gene Page:

33109
33578 Rab

33578 - Rab

GO Terms:

GO:0005525, GO:0007264, GO:0000160, GO:0003677, GO:0006355, GO:0015031

CD Domains:

Go To Gene Page:

33578
3579 hypothetical protein

3579 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3579
35968 RecA-like_NTPases superfamily

35968 - RecA-like_NTPases superfamily

GO Terms:

GO:0005524

CD Domains:

Go To Gene Page:

35968
37328 PriL_PriS_Eukaryotic

37328 - PriL_PriS_Eukaryotic

GO Terms:

GO:0003676, GO:0008152, GO:0016740, GO:0003896, GO:0005658, GO:0006269, GO:0003720, GO:0003724, GO:0004779, GO:0008192, GO:0008193, GO:0008723, GO:0008905, GO:0016779, GO:0017103

CD Domains:

Go To Gene Page:

37328
4042 hypothetical protein

4042 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4042
5009 hypothetical protein

5009 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5009
5868 hypothetical protein

5868 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5868
6652 hypothetical protein

6652 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6652
7027 ArfGap superfamily

7027 - ArfGap superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

7027
7090 hypothetical protein

7090 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7090
7904 hypothetical protein

7904 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7904
8486 hypothetical protein

8486 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8486
GO ID Go Term p-value q-value Cluster
GO:0007264 small GTPase mediated signal transduction 0.00413978 1 Thaps_bicluster_0222
GO:0015031 protein transport 0.00656512 1 Thaps_bicluster_0222
GO:0006269 DNA replication, synthesis of RNA primer 0.00865975 1 Thaps_bicluster_0222
GO:0006310 DNA recombination 0.0536808 1 Thaps_bicluster_0222
GO:0000160 two-component signal transduction system (phosphorelay) 0.0754724 1 Thaps_bicluster_0222
GO:0007001 chromosome organization and biogenesis (sensu Eukaryota) 0.080847 1 Thaps_bicluster_0222
GO:0006334 nucleosome assembly 0.0861925 1 Thaps_bicluster_0222
GO:0006886 intracellular protein transport 0.145627 1 Thaps_bicluster_0222
GO:0006810 transport 0.419404 1 Thaps_bicluster_0222
GO:0006468 protein amino acid phosphorylation 0.468128 1 Thaps_bicluster_0222
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