Thaps_bicluster_0055 Residual: 0.46
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_0055 0.46 Thalassiosira pseudonana
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Displaying 1 - 44 of 44
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10008 hypothetical protein

10008 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10008
11037 S_TKc

11037 - S_TKc

GO Terms:

GO:0004672, GO:0005524, GO:0006468, GO:0004713, GO:0004674

CD Domains:

Go To Gene Page:

11037
11168 hypothetical protein

11168 - hypothetical protein

GO Terms:

GO:0003677, GO:0006355

CD Domains:

Go To Gene Page:

11168
11199 EEP superfamily

11199 - EEP superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

11199
1140 hypothetical protein

1140 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1140
11616 hypothetical protein

11616 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11616
11654 hypothetical protein

11654 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11654
11897 DUF1800 superfamily

11897 - DUF1800 superfamily

GO Terms:

GO:0007155

CD Domains:

Go To Gene Page:

11897
14727 COG4770

14727 - COG4770

GO Terms:

GO:0005524, GO:0008152, GO:0016874, GO:0004086, GO:0004485

CD Domains:

Go To Gene Page:

14727
1946 hypothetical protein

1946 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1946
20979 hypothetical protein

20979 - hypothetical protein

GO Terms:

GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

20979
21336 Reprolysin_3

21336 - Reprolysin_3

GO Terms:

GO:0004222, GO:0006508, GO:0008237, GO:0008270

CD Domains:

Go To Gene Page:

21336
21439 A_deamin superfamily

21439 - A_deamin superfamily

GO Terms:

GO:0008152, GO:0003723, GO:0004000, GO:0006396, GO:0004339

CD Domains:

Go To Gene Page:

21439
22560 hypothetical protein

22560 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22560
22624 hypothetical protein

22624 - hypothetical protein

GO Terms:

GO:0005524, GO:0015986, GO:0016469, GO:0046933, GO:0046961, GO:0004339

CD Domains:

Go To Gene Page:

22624
23334 hypothetical protein

23334 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

23334
23343 AdoMet_MTases

23343 - AdoMet_MTases

GO Terms:

GO:0008757

CD Domains:

Go To Gene Page:

23343
23546 hypothetical protein

23546 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23546
23775 hypothetical protein

23775 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23775
23895 hypothetical protein

23895 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

23895
23901 hypothetical protein

23901 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23901
23991 (Tp_HSF_2.5g) HSF_DNA-bind superfamily

23991 - (Tp_HSF_2.5g) HSF_DNA-bind superfamily

GO Terms:

GO:0003700, GO:0005634, GO:0006355, GO:0003677

CD Domains:

Go To Gene Page:

23991
24587 Homoserine_dh

24587 - Homoserine_dh

GO Terms:

GO:0004412

CD Domains:

Go To Gene Page:

24587
24830 hypothetical protein

24830 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24830
25749 hypothetical protein

25749 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25749
263344 CitE

263344 - CitE

GO Terms:

GO:0008815, GO:0009346

CD Domains:

Go To Gene Page:

263344
263346 hypothetical protein

263346 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

263346
264063 RsuA

264063 - RsuA

GO Terms:

GO:0004730, GO:0003723, GO:0006396, GO:0009982

CD Domains:

Go To Gene Page:

264063
264670 Thioredoxin_like superfamily

264670 - Thioredoxin_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

264670
268593 COG3899

268593 - COG3899

GO Terms:

NA

CD Domains:

Go To Gene Page:

268593
2799 hypothetical protein

2799 - hypothetical protein

GO Terms:

GO:0005488, GO:0006810, GO:0016020

CD Domains:

Go To Gene Page:

2799
2865 hypothetical protein

2865 - hypothetical protein

GO Terms:

GO:0005524, GO:0015986, GO:0016469, GO:0046933, GO:0046961

CD Domains:

Go To Gene Page:

2865
3034 hypothetical protein

3034 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3034
32347 CAS_like superfamily

32347 - CAS_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

32347
37813 YafJ

37813 - YafJ

GO Terms:

GO:0008152

CD Domains:

Go To Gene Page:

37813
4143 hypothetical protein

4143 - hypothetical protein

GO Terms:

GO:0003684, GO:0005524, GO:0006298

CD Domains:

Go To Gene Page:

4143
4312 hypothetical protein

4312 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4312
5857 hypothetical protein

5857 - hypothetical protein

GO Terms:

GO:0005576, GO:0006030, GO:0008061, GO:0004339

CD Domains:

Go To Gene Page:

5857
6127 hypothetical protein

6127 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6127
6192 hypothetical protein

6192 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6192
6681 GH43_62_32_68 superfamily

6681 - GH43_62_32_68 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

6681
7613 hypothetical protein

7613 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7613
8797 hypothetical protein

8797 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8797
9057 hypothetical protein

9057 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9057
GO ID Go Term p-value q-value Cluster
GO:0008152 metabolism 0.126308 1 Thaps_bicluster_0055
GO:0006355 regulation of transcription, DNA-dependent 0.245811 1 Thaps_bicluster_0055
GO:0006810 transport 0.441554 1 Thaps_bicluster_0055
GO:0006468 protein amino acid phosphorylation 0.491617 1 Thaps_bicluster_0055
GO:0006508 proteolysis and peptidolysis 0.602351 1 Thaps_bicluster_0055
GO:0015986 ATP synthesis coupled proton transport 0.00858751 1 Thaps_bicluster_0055
GO:0006396 RNA processing 0.0134241 1 Thaps_bicluster_0055
GO:0006298 mismatch repair 0.0485536 1 Thaps_bicluster_0055
GO:0006030 chitin metabolism 0.0632695 1 Thaps_bicluster_0055
GO:0007155 cell adhesion 0.089224 1 Thaps_bicluster_0055
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