Thaps_bicluster_0155 Residual: 0.30
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_0155 0.30 Thalassiosira pseudonana
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Displaying 1 - 23 of 23
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11643 (Tp_AP2-EREBP3) regulator [Rayko]

11643 - (Tp_AP2-EREBP3) regulator [Rayko]

GO Terms:

GO:0003700, GO:0005634, GO:0006355

CD Domains:

Go To Gene Page:

11643
11799 hypothetical protein

11799 - hypothetical protein

GO Terms:

GO:0004190, GO:0006508

CD Domains:

Go To Gene Page:

11799
11806 TRAM_LAG1_CLN8

11806 - TRAM_LAG1_CLN8

GO Terms:

GO:0016021, GO:0050291

CD Domains:

Go To Gene Page:

11806
11918 hypothetical protein

11918 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11918
1224 MFS transporter

1224 - MFS transporter

GO Terms:

NA

CD Domains:

Go To Gene Page:

1224
13175 COG4178

13175 - COG4178

GO Terms:

GO:0005524, GO:0016887, GO:0000166, GO:0017111

CD Domains:

Go To Gene Page:

13175
1968 hypothetical protein

1968 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1968
2227 DUF3661

2227 - DUF3661

GO Terms:

NA

CD Domains:

Go To Gene Page:

2227
2376 PTZ00298

2376 - PTZ00298

GO Terms:

GO:0005524, GO:0008152, GO:0016301, GO:0016310, GO:0004496, GO:0005737, GO:0009058, GO:0016773

CD Domains:

Go To Gene Page:

2376
24220 hypothetical protein

24220 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24220
24304 hypothetical protein

24304 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24304
2497 hypothetical protein

2497 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2497
261211 FGE-sulfatase superfamily

261211 - FGE-sulfatase superfamily

GO Terms:

GO:0005554

CD Domains:

Go To Gene Page:

261211
261327 NADB_Rossmann superfamily

261327 - NADB_Rossmann superfamily

GO Terms:

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:

261327
30105 (FPS1) Trans_IPPS_HT

30105 - (FPS1) Trans_IPPS_HT

GO Terms:

GO:0008299

CD Domains:

Go To Gene Page:

30105
33794 ERG4_ERG24 superfamily

33794 - ERG4_ERG24 superfamily

GO Terms:

GO:0016020, GO:0047598

CD Domains:

Go To Gene Page:

33794
33926 p450 superfamily

33926 - p450 superfamily

GO Terms:

GO:0006118, GO:0004497, GO:0008398

CD Domains:

Go To Gene Page:

33926
34510 UAA

34510 - UAA

GO Terms:

NA

CD Domains:

Go To Gene Page:

34510
3750 hypothetical protein

3750 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3750
7227 hypothetical protein

7227 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7227
8587 hypothetical protein

8587 - hypothetical protein

GO Terms:

GO:0003700, GO:0005622, GO:0006355

CD Domains:

Go To Gene Page:

8587
9133 hypothetical protein

9133 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9133
GO ID Go Term p-value q-value Cluster
GO:0008299 isoprenoid biosynthesis 0.0225308 1 Thaps_bicluster_0155
GO:0016310 phosphorylation 0.0265779 1 Thaps_bicluster_0155
GO:0006470 protein amino acid dephosphorylation 0.0525183 1 Thaps_bicluster_0155
GO:0009058 biosynthesis 0.108157 1 Thaps_bicluster_0155
GO:0006355 regulation of transcription, DNA-dependent 0.129013 1 Thaps_bicluster_0155
GO:0008152 metabolism 0.203212 1 Thaps_bicluster_0155
GO:0006118 electron transport 0.432304 1 Thaps_bicluster_0155
GO:0006508 proteolysis and peptidolysis 0.459068 1 Thaps_bicluster_0155
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