Thaps_bicluster_0024 Residual: 0.39
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_0024 0.39 Thalassiosira pseudonana
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Displaying 1 - 42 of 42
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10262 hypothetical protein

10262 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10262
10425 hypothetical protein

10425 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10425
10521 hypothetical protein

10521 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10521
1083 MATE_eukaryotic

1083 - MATE_eukaryotic

GO Terms:

GO:0006855, GO:0015238, GO:0015297, GO:0016020

CD Domains:

Go To Gene Page:

1083
10953 PAP2_C

10953 - PAP2_C

GO Terms:

NA

CD Domains:

Go To Gene Page:

10953
11504 hypothetical protein

11504 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11504
19937 Med31 superfamily

19937 - Med31 superfamily

GO Terms:

GO:0000119, GO:0016455, GO:0045449

CD Domains:

Go To Gene Page:

19937
20016 FKBP_C

20016 - FKBP_C

GO Terms:

GO:0006457, GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

20016
21274 hypothetical protein

21274 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21274
21311 hypothetical protein

21311 - hypothetical protein

GO Terms:

GO:0008757

CD Domains:

Go To Gene Page:

21311
22166 hypothetical protein

22166 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22166
22189 hypothetical protein

22189 - hypothetical protein

GO Terms:

GO:0008080, GO:0000074

CD Domains:

Go To Gene Page:

22189
22713 Bac_surface_Ag superfamily

22713 - Bac_surface_Ag superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

22713
23001 hypothetical protein

23001 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23001
23507 hypothetical protein

23507 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23507
23697 Smc

23697 - Smc

GO Terms:

GO:0006457, GO:0031072, GO:0051082, GO:0008570

CD Domains:

Go To Gene Page:

23697
2495 Cupin_7 superfamily

2495 - Cupin_7 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

2495
25190 hypothetical protein

25190 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25190
25718 hypothetical protein

25718 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25718
25820 hypothetical protein

25820 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25820
261716 GAS

261716 - GAS

GO Terms:

NA

CD Domains:

Go To Gene Page:

261716
262559 (RAB11a) Rab11_like

262559 - (RAB11a) 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:

262559
262807 Peptidase_S9 superfamily

262807 - Peptidase_S9 superfamily

GO Terms:

GO:0003824, GO:0004622

CD Domains:

Go To Gene Page:

262807
263092 Peptidases_S8_Subtilisin_subset

263092 - Peptidases_S8_Subtilisin_subset

GO Terms:

GO:0004289, GO:0006508

CD Domains:

Go To Gene Page:

263092
264587 (Tp_bZIP25b) regulator [Rayko]

264587 - (Tp_bZIP25b) regulator [Rayko]

GO Terms:

GO:0003677, GO:0005634, GO:0006355

CD Domains:

Go To Gene Page:

264587
268403 hypothetical protein

268403 - hypothetical protein

GO Terms:

GO:0000074

CD Domains:

Go To Gene Page:

268403
270386 hypothetical protein

270386 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270386
3099 hypothetical protein

3099 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3099
32191 EAP30

32191 - EAP30

GO Terms:

NA

CD Domains:

Go To Gene Page:

32191
35424 PKc_like superfamily

35424 - PKc_like superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

35424
35643 STKc_MOK

35643 - STKc_MOK

GO Terms:

GO:0004672, GO:0005524, GO:0006468, GO:0004713, GO:0004674, GO:0004682, GO:0004691, GO:0005952, GO:0005956, GO:0008603, GO:0008605

CD Domains:

Go To Gene Page:

35643
37458 COG0523

37458 - COG0523

GO Terms:

NA

CD Domains:

Go To Gene Page:

37458
4341 hypothetical protein

4341 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4341
4454 2OG-FeII_Oxy_3

4454 - 2OG-FeII_Oxy_3

GO Terms:

GO:0016706, GO:0019538

CD Domains:

Go To Gene Page:

4454
4470 (Tp_CXC2) TCR

4470 - (Tp_CXC2) TCR

GO Terms:

NA

CD Domains:

Go To Gene Page:

4470
4633 hypothetical protein

4633 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4633
5515 SAM_superfamily superfamily

5515 - SAM_superfamily superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

5515
5607 Choline_transpo superfamily

5607 - Choline_transpo superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

5607
6043 NADB_Rossmann superfamily

6043 - NADB_Rossmann superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

6043
7247 hypothetical protein

7247 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7247
7817 TrkA

7817 - TrkA

GO Terms:

NA

CD Domains:

Go To Gene Page:

7817
8528 hypothetical protein

8528 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8528
GO ID Go Term p-value q-value Cluster
GO:0006457 protein folding 0.0672817 1 Thaps_bicluster_0024
GO:0000160 two-component signal transduction system (phosphorelay) 0.0857958 1 Thaps_bicluster_0024
GO:0007264 small GTPase mediated signal transduction 0.106885 1 Thaps_bicluster_0024
GO:0015031 protein transport 0.133329 1 Thaps_bicluster_0024
GO:0019538 protein metabolism 0.14198 1 Thaps_bicluster_0024
GO:0006468 protein amino acid phosphorylation 0.154769 1 Thaps_bicluster_0024
GO:0006886 intracellular protein transport 0.164653 1 Thaps_bicluster_0024
GO:0006355 regulation of transcription, DNA-dependent 0.269975 1 Thaps_bicluster_0024
GO:0006508 proteolysis and peptidolysis 0.626101 1 Thaps_bicluster_0024
GO:0000074 regulation of cell cycle 0.0162397 1 Thaps_bicluster_0024
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