Thaps_bicluster_0287 Residual: 0.36
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_0287 0.36 Thalassiosira pseudonana
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Displaying 1 - 25 of 25
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11325 Aa_trans superfamily

11325 - Aa_trans superfamily

GO Terms:

GO:0005279, GO:0006865, GO:0016020

CD Domains:

Go To Gene Page:

11325
1383 (PDS1) phytoene_desat

1383 - (PDS1) phytoene_desat

GO Terms:

GO:0006118, GO:0016491, GO:0016937, GO:0017099, GO:0019109

CD Domains:

Go To Gene Page:

1383
13922 2A0303

13922 - 2A0303

GO Terms:

GO:0005279, GO:0006865, GO:0016020, GO:0006810

CD Domains:

Go To Gene Page:

13922
16605 Aldolase_II superfamily

16605 - Aldolase_II superfamily

GO Terms:

GO:0008738

CD Domains:

Go To Gene Page:

16605
1773 hypothetical protein

1773 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1773
20921 S2P-M50_like_2

20921 - S2P-M50_like_2

GO Terms:

GO:0004222, GO:0006508

CD Domains:

Go To Gene Page:

20921
21360 hypothetical protein

21360 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21360
225 RRF

225 - RRF

GO Terms:

GO:0006412

CD Domains:

Go To Gene Page:

225
261690 ABCG_EPDR

261690 - ABCG_EPDR

GO Terms:

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

CD Domains:

Go To Gene Page:

261690
262572 Octopine_DH

262572 - Octopine_DH

GO Terms:

GO:0016491, GO:0050662

CD Domains:

Go To Gene Page:

262572
262762 BET4

262762 - BET4

GO Terms:

GO:0008318, GO:0018346, GO:0004659, GO:0004660, GO:0004661, GO:0004662, GO:0004663, GO:0008412, GO:0008495, GO:0046428

CD Domains:

Go To Gene Page:

262762
263431 Ptr

263431 - Ptr

GO Terms:

GO:0004222, GO:0006508, GO:0016919

CD Domains:

Go To Gene Page:

263431
263724 sigpep_I_bact

263724 - sigpep_I_bact

GO Terms:

GO:0006508, GO:0008236, GO:0016020, GO:0009004

CD Domains:

Go To Gene Page:

263724
263781 sulP

263781 - sulP

GO Terms:

NA

CD Domains:

Go To Gene Page:

263781
264275

264275 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

264275
3577 hypothetical protein

3577 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3577
36494 NBD_sugar-kinase_HSP70_actin superfamily

36494 - NBD_sugar-kinase_HSP70_actin superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

36494
38240 HA

38240 - HA

GO Terms:

NA

CD Domains:

Go To Gene Page:

38240
38312 PTZ00318

38312 - PTZ00318

GO Terms:

GO:0006118, GO:0016491, GO:0015036, GO:0003954

CD Domains:

Go To Gene Page:

38312
5286 Cupin_8 superfamily

5286 - Cupin_8 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

5286
6056 GCD2

6056 - GCD2

GO Terms:

GO:0003743, GO:0005525, GO:0005851, GO:0006413

CD Domains:

Go To Gene Page:

6056
6897 RhaT

6897 - RhaT

GO Terms:

GO:0016020

CD Domains:

Go To Gene Page:

6897
7191 Aldo_ket_red

7191 - Aldo_ket_red

GO Terms:

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:

7191
9000 hypothetical protein

9000 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9000
GO ID Go Term p-value q-value Cluster
GO:0006865 amino acid transport 0.00184627 1 Thaps_bicluster_0287
GO:0018346 protein amino acid prenylation 0.0113237 1 Thaps_bicluster_0287
GO:0006508 proteolysis and peptidolysis 0.0241111 1 Thaps_bicluster_0287
GO:0006413 translational initiation 0.053299 1 Thaps_bicluster_0287
GO:0006118 electron transport 0.119465 1 Thaps_bicluster_0287
GO:0006412 protein biosynthesis 0.319237 1 Thaps_bicluster_0287
GO:0006810 transport 0.347574 1 Thaps_bicluster_0287
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