Thaps_bicluster_0016 Residual: 0.55
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_0016 0.55 Thalassiosira pseudonana
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Displaying 1 - 46 of 46
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10080 hypothetical protein

10080 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10080
10847 Aha1_N superfamily

10847 - Aha1_N superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

10847
11500 ANK

11500 - ANK

GO Terms:

NA

CD Domains:

Go To Gene Page:

11500
11585 CDC27

11585 - CDC27

GO Terms:

NA

CD Domains:

Go To Gene Page:

11585
18378 Beach

18378 - Beach

GO Terms:

NA

CD Domains:

Go To Gene Page:

18378
21393 hypothetical protein

21393 - hypothetical protein

GO Terms:

GO:0008570

CD Domains:

Go To Gene Page:

21393
2331 hypothetical protein

2331 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2331
24642 PLN02286

24642 - PLN02286

GO Terms:

NA

CD Domains:

Go To Gene Page:

24642
24647 Tryp_SPc

24647 - Tryp_SPc

GO Terms:

GO:0004295, GO:0006508, GO:0004263

CD Domains:

Go To Gene Page:

24647
24808 hypothetical protein

24808 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24808
260749 CHAT superfamily

260749 - CHAT superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

260749
261040 RsuA

261040 - RsuA

GO Terms:

GO:0004730

CD Domains:

Go To Gene Page:

261040
262704 Nudix_Hydrolase superfamily

262704 - Nudix_Hydrolase superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

262704
262949 LRR_RI superfamily

262949 - LRR_RI superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

262949
263903 hypothetical protein

263903 - hypothetical protein

GO Terms:

GO:0005489, GO:0006118, GO:0004791

CD Domains:

Go To Gene Page:

263903
264746 hypothetical protein

264746 - hypothetical protein

GO Terms:

GO:0003723, GO:0004525, GO:0006396

CD Domains:

Go To Gene Page:

264746
264816 ABC_ATPase superfamily

264816 - ABC_ATPase superfamily

GO Terms:

GO:0004518, GO:0005622, GO:0006281, GO:0003684, GO:0005524, GO:0006298

CD Domains:

Go To Gene Page:

264816
269747 COG5028

269747 - COG5028

GO Terms:

GO:0005515, GO:0006886, GO:0006888, GO:0030127, GO:0003779

CD Domains:

Go To Gene Page:

269747
270038 Peptidase_C14

270038 - Peptidase_C14

GO Terms:

GO:0006508, GO:0030693

CD Domains:

Go To Gene Page:

270038
270199 (Tpt1) triose phosphate/phosphate translocator

270199 - (Tpt1) triose phosphate/phosphate translocator

GO Terms:

NA

CD Domains:

Go To Gene Page:

270199
270352 hypothetical protein

270352 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270352
32314 LSm2

32314 - LSm2

GO Terms:

GO:0005634, GO:0005732, GO:0006397, GO:0030529

CD Domains:

Go To Gene Page:

32314
3323 hypothetical protein

3323 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3323
33603 zf-CHY

33603 - zf-CHY

GO Terms:

GO:0000151, GO:0004842, GO:0008270, GO:0016567

CD Domains:

Go To Gene Page:

33603
34058 hypothetical protein

34058 - hypothetical protein

GO Terms:

GO:0008757, GO:0003677, GO:0006306, GO:0008170, GO:0009007

CD Domains:

Go To Gene Page:

34058
36246 MPP_superfamily superfamily

36246 - MPP_superfamily superfamily

GO Terms:

GO:0016787, GO:0000158, GO:0004721, GO:0004723, GO:0004724, GO:0005963, GO:0008420, GO:0008597, GO:0015071, GO:0017018, GO:0017020, GO:0017023, GO:0030357

CD Domains:

Go To Gene Page:

36246
37126 RRM_SF superfamily

37126 - RRM_SF superfamily

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

37126
3770 DUF3506 superfamily

3770 - DUF3506 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

3770
39710 PTZ00258

39710 - PTZ00258

GO Terms:

GO:0005525, GO:0005554

CD Domains:

Go To Gene Page:

39710
41014 Membrane-FADS-like superfamily

41014 - Membrane-FADS-like superfamily

GO Terms:

GO:0016491, GO:0006636, GO:0016020, GO:0016717

CD Domains:

Go To Gene Page:

41014
4264 hypothetical protein

4264 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4264
42740 deoxycytidylate_deaminase

42740 - deoxycytidylate_deaminase

GO Terms:

GO:0008270, GO:0016787, GO:0004132

CD Domains:

Go To Gene Page:

42740
4567 hypothetical protein

4567 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4567
4713 hypothetical protein

4713 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

4713
5035 HP_PGM_like

5035 - HP_PGM_like

GO Terms:

GO:0003824, GO:0008152

CD Domains:

Go To Gene Page:

5035
5223 Nudix_Hydrolase superfamily

5223 - Nudix_Hydrolase superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

5223
5323 COG0802

5323 - COG0802

GO Terms:

NA

CD Domains:

Go To Gene Page:

5323
5896 RNase_T2

5896 - RNase_T2

GO Terms:

GO:0003723, GO:0004521, GO:0005509

CD Domains:

Go To Gene Page:

5896
6971 hypothetical protein

6971 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6971
7601 hypothetical protein

7601 - hypothetical protein

GO Terms:

GO:0004221

CD Domains:

Go To Gene Page:

7601
832 UPF0160

832 - UPF0160

GO Terms:

NA

CD Domains:

Go To Gene Page:

832
8436 hypothetical protein

8436 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8436
8719 AarF

8719 - AarF

GO Terms:

GO:0004672, GO:0005524, GO:0006468

CD Domains:

Go To Gene Page:

8719
9002 SQS_PSY

9002 - SQS_PSY

GO Terms:

NA

CD Domains:

Go To Gene Page:

9002
9150 hypothetical protein

9150 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9150
GO ID Go Term p-value q-value Cluster
GO:0006888 ER to Golgi transport 0.0172498 1 Thaps_bicluster_0016
GO:0006636 fatty acid desaturation 0.034223 1 Thaps_bicluster_0016
GO:0006298 mismatch repair 0.0453868 1 Thaps_bicluster_0016
GO:0006397 mRNA processing 0.061908 1 Thaps_bicluster_0016
GO:0006306 DNA methylation 0.080847 1 Thaps_bicluster_0016
GO:0006281 DNA repair 0.125374 1 Thaps_bicluster_0016
GO:0006886 intracellular protein transport 0.145627 1 Thaps_bicluster_0016
GO:0006396 RNA processing 0.155589 1 Thaps_bicluster_0016
GO:0006508 proteolysis and peptidolysis 0.201185 1 Thaps_bicluster_0016
GO:0016567 protein ubiquitination 0.206145 1 Thaps_bicluster_0016
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