Thaps_bicluster_0021 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_0021 0.47 Thalassiosira pseudonana
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Displaying 1 - 48 of 48
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10525 hypothetical protein

10525 - hypothetical protein

GO Terms:

GO:0016491

CD Domains:

Go To Gene Page:

10525
10659 NADB_Rossmann superfamily

10659 - NADB_Rossmann superfamily

GO Terms:

GO:0008152, GO:0016491

CD Domains:

Go To Gene Page:

10659
10842 hypothetical protein

10842 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10842
11489 hypothetical protein

11489 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11489
12094 hypothetical protein

12094 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12094
1418 cyclophilin

1418 - cyclophilin

GO Terms:

GO:0006457

CD Domains:

Go To Gene Page:

1418
1638 hypothetical protein

1638 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1638
1817 hypothetical protein

1817 - hypothetical protein

GO Terms:

GO:0005524, GO:0006457

CD Domains:

Go To Gene Page:

1817
21806 hypothetical protein

21806 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21806
2235 DnaJ

2235 - DnaJ

GO Terms:

GO:0006457, GO:0031072, GO:0051082

CD Domains:

Go To Gene Page:

2235
23464 EAP30

23464 - EAP30

GO Terms:

GO:0016491

CD Domains:

Go To Gene Page:

23464
25173 hypothetical protein

25173 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25173
25420 hypothetical protein

25420 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25420
261058 UDP-g_GGTase superfamily

261058 - UDP-g_GGTase superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

261058
261476 hypothetical protein

261476 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

261476
262537 (SELB) SelB_euk

262537 - (SELB) SelB_euk

GO Terms:

GO:0005525, GO:0006412

CD Domains:

Go To Gene Page:

262537
262721 (FHK1) sensory_box

262721 - (FHK1) sensory_box

GO Terms:

GO:0004871, GO:0007165

CD Domains:

Go To Gene Page:

262721
2637 hypothetical protein

2637 - hypothetical protein

GO Terms:

GO:0004431, GO:0016308

CD Domains:

Go To Gene Page:

2637
264761 (LigaseIV) DNA_ligase_A_N

264761 - (LigaseIV) DNA_ligase_A_N

GO Terms:

NA

CD Domains:

Go To Gene Page:

264761
264885 TBC

264885 - TBC

GO Terms:

NA

CD Domains:

Go To Gene Page:

264885
268364 UPF0051

268364 - UPF0051

GO Terms:

GO:0005554

CD Domains:

Go To Gene Page:

268364
269699 hypothetical protein

269699 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

269699
2826 2OG-FeII_Oxy_3 superfamily

2826 - 2OG-FeII_Oxy_3 superfamily

GO Terms:

GO:0006508, GO:0008233, GO:0016706, GO:0019538

CD Domains:

Go To Gene Page:

2826
28487 ADK

28487 - ADK

GO Terms:

GO:0005524, GO:0006139, GO:0019201, GO:0004017, GO:0046899

CD Domains:

Go To Gene Page:

28487
2985 hypothetical protein

2985 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

2985
3179 WD40 superfamily

3179 - WD40 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

3179
3454 hypothetical protein

3454 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3454
3458 hypothetical protein

3458 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3458
36204 ATM1

36204 - ATM1

GO Terms:

GO:0005524, GO:0006810, GO:0016021, GO:0042626, GO:0016887, GO:0000166, GO:0017111

CD Domains:

Go To Gene Page:

36204
3710 hypothetical protein

3710 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3710
3733 hypothetical protein

3733 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3733
37471 (DPS1) DHPS

37471 - (DPS1) DHPS

GO Terms:

GO:0004156, GO:0009396, GO:0003848

CD Domains:

Go To Gene Page:

37471
37880 rRNA intron-encoded homing endonuclease

37880 - rRNA intron-encoded homing endonuclease

GO Terms:

NA

CD Domains:

Go To Gene Page:

37880
38066 (ALD2) ALDH-SF superfamily

38066 - (ALD2) ALDH-SF superfamily

GO Terms:

GO:0008152, GO:0016491, GO:0004029

CD Domains:

Go To Gene Page:

38066
3868 NADB_Rossmann superfamily

3868 - NADB_Rossmann superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

3868
38861 hypothetical protein

38861 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

38861
4730 hypothetical protein

4730 - hypothetical protein

GO Terms:

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

CD Domains:

Go To Gene Page:

4730
4858 hypothetical protein

4858 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4858
5221 COG1233

5221 - COG1233

GO Terms:

GO:0016117, GO:0016705, GO:0050660

CD Domains:

Go To Gene Page:

5221
5850 hypothetical protein

5850 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5850
5866 hypothetical protein

5866 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

5866
5882 hypothetical protein

5882 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5882
6174 hypothetical protein

6174 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6174
6683 HMGB-UBF_HMG-box

6683 - HMGB-UBF_HMG-box

GO Terms:

GO:0003677, GO:0006355, GO:0004402

CD Domains:

Go To Gene Page:

6683
ThpsCp061 (ycf90) hypothetical protein

ThpsCp061 - (ycf90) hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp061
ThpsCt006 (trnW(cca))

ThpsCt006 - (trnW(cca))

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCt006
GO ID Go Term p-value q-value Cluster
GO:0009108 coenzyme biosynthesis 0.00619321 1 Thaps_bicluster_0021
GO:0006457 protein folding 0.00681196 1 Thaps_bicluster_0021
GO:0009396 folic acid and derivative biosynthesis 0.02152 1 Thaps_bicluster_0021
GO:0016117 carotenoid biosynthesis 0.0245587 1 Thaps_bicluster_0021
GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolism 0.0455847 1 Thaps_bicluster_0021
GO:0007165 signal transduction 0.117274 1 Thaps_bicluster_0021
GO:0019538 protein metabolism 0.133715 1 Thaps_bicluster_0021
GO:0008152 metabolism 0.363828 1 Thaps_bicluster_0021
GO:0006412 protein biosynthesis 0.408205 1 Thaps_bicluster_0021
GO:0006810 transport 0.441554 1 Thaps_bicluster_0021
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