Thaps_bicluster_0001 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_0001 0.47 Thalassiosira pseudonana
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Displaying 1 - 46 of 46
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10472 hypothetical protein

10472 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10472
11366 hypothetical protein

11366 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11366
11437 hypothetical protein

11437 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11437
11728 hypothetical protein

11728 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11728
12187 hypothetical protein

12187 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12187
1373 hypothetical protein

1373 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1373
1668 DnaJ

1668 - DnaJ

GO Terms:

GO:0006457, GO:0031072, GO:0051082

CD Domains:

Go To Gene Page:

1668
1758 hypothetical protein

1758 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1758
20065 (Tp_aureochrome3) regulator [Rayko]

20065 - (Tp_aureochrome3) regulator [Rayko]

GO Terms:

GO:0004871, GO:0007165

CD Domains:

Go To Gene Page:

20065
2031 hypothetical protein

2031 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2031
20793 hypothetical protein

20793 - hypothetical protein

GO Terms:

GO:0004003, GO:0004004, GO:0008026, GO:0008094, GO:0008186, GO:0015462, GO:0015616, GO:0016887, GO:0017116, GO:0042623, GO:0042624, GO:0042625, GO:0042626

CD Domains:

Go To Gene Page:

20793
22954 hypothetical protein

22954 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22954
23729 hypothetical protein

23729 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23729
24284 hypothetical protein

24284 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24284
24319 hypothetical protein

24319 - hypothetical protein

GO Terms:

GO:0005524

CD Domains:

Go To Gene Page:

24319
24657 hypothetical protein

24657 - hypothetical protein

GO Terms:

GO:0003700, GO:0005622, GO:0006355

CD Domains:

Go To Gene Page:

24657
25111 HA

25111 - HA

GO Terms:

NA

CD Domains:

Go To Gene Page:

25111
25522 hypothetical protein

25522 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25522
262127 NADB_Rossmann superfamily

262127 - NADB_Rossmann superfamily

GO Terms:

GO:0008152, GO:0008415

CD Domains:

Go To Gene Page:

262127
262141 (Tp_AP2-EREBP5) pathogenesis-related transcription factor

262141 - (Tp_AP2-EREBP5) pathogenesis-related transcription factor

GO Terms:

GO:0003700, GO:0005634, GO:0006355

CD Domains:

Go To Gene Page:

262141
262570 IFT20 superfamily

262570 - IFT20 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

262570
263992 hypothetical protein

263992 - hypothetical protein

GO Terms:

GO:0005489, GO:0006118

CD Domains:

Go To Gene Page:

263992
264646 Glyco_hydro_9 superfamily

264646 - Glyco_hydro_9 superfamily

GO Terms:

GO:0004553, GO:0005975, GO:0008810

CD Domains:

Go To Gene Page:

264646
32173 (RT16) rpsP

32173 - (RT16) rpsP

GO Terms:

GO:0003735, GO:0005622, GO:0005840, GO:0006412

CD Domains:

Go To Gene Page:

32173
34237 Motor_domain superfamily

34237 - Motor_domain superfamily

GO Terms:

GO:0003777, GO:0005524, GO:0005875, GO:0007018

CD Domains:

Go To Gene Page:

34237
34618 Rab11_like

34618 - Rab11_like

GO Terms:

GO:0005525, GO:0007264, GO:0006886, GO:0000160, GO:0003677, GO:0006355, GO:0015031, GO:0003924, GO:0003925

CD Domains:

Go To Gene Page:

34618
35501 HELICc

35501 - HELICc

GO Terms:

GO:0003677, GO:0005524, GO:0003676, GO:0004386

CD Domains:

Go To Gene Page:

35501
36640 DEXDc

36640 - DEXDc

GO Terms:

GO:0003677, GO:0005524, GO:0008026

CD Domains:

Go To Gene Page:

36640
37047 PH-like superfamily

37047 - PH-like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

37047
3734 hypothetical protein

3734 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3734
3779 (NDK4) NDPk7B

3779 - (NDK4) NDPk7B

GO Terms:

GO:0004550, GO:0005524, GO:0006183, GO:0006228, GO:0006241

CD Domains:

Go To Gene Page:

3779
3785 AFD_class_I superfamily

3785 - AFD_class_I superfamily

GO Terms:

GO:0003824, GO:0008152, GO:0016207

CD Domains:

Go To Gene Page:

3785
4271 hypothetical protein

4271 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4271
4462 hypothetical protein

4462 - hypothetical protein

GO Terms:

GO:0003700, GO:0006355

CD Domains:

Go To Gene Page:

4462
5351 hypothetical protein

5351 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5351
5671 hypothetical protein

5671 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5671
6284 hypothetical protein

6284 - hypothetical protein

GO Terms:

GO:0007275

CD Domains:

Go To Gene Page:

6284
6446 hypothetical protein

6446 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6446
656 ECM4

656 - ECM4

GO Terms:

NA

CD Domains:

Go To Gene Page:

656
6931 hypothetical protein

6931 - hypothetical protein

GO Terms:

GO:0016021

CD Domains:

Go To Gene Page:

6931
7017 hypothetical protein

7017 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7017
7719 YbaK_like superfamily

7719 - YbaK_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

7719
8515 hypothetical protein

8515 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8515
8868 hypothetical protein

8868 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8868
9370 hypothetical protein

9370 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9370
GO ID Go Term p-value q-value Cluster
GO:0005975 carbohydrate metabolism 0.291459 1 Thaps_bicluster_0001
GO:0006241 CTP biosynthesis 0.031426 1 Thaps_bicluster_0001
GO:0007275 development 0.0090768 1 Thaps_bicluster_0001
GO:0006118 electron transport 0.712682 1 Thaps_bicluster_0001
GO:0006183 GTP biosynthesis 0.031426 1 Thaps_bicluster_0001
GO:0006886 intracellular protein transport 0.219272 1 Thaps_bicluster_0001
GO:0008152 metabolism 0.563624 1 Thaps_bicluster_0001
GO:0007018 microtubule-based movement 0.178711 1 Thaps_bicluster_0001
GO:0006470 protein amino acid dephosphorylation 0.112044 1 Thaps_bicluster_0001
GO:0006412 protein biosynthesis 0.536976 1 Thaps_bicluster_0001
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