Thaps_bicluster_0135 Residual: 0.41
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_0135 0.41 Thalassiosira pseudonana
" class="views-fluidgrid-wrapper clear-block">
Displaying 1 - 38 of 38
" class="views-fluidgrid-wrapper clear-block">
11145 hypothetical protein

11145 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11145
11367 GH_J

11367 - GH_J

GO Terms:

NA

CD Domains:

Go To Gene Page:

11367
11624 Fip1

11624 - Fip1

GO Terms:

GO:0004402

CD Domains:

Go To Gene Page:

11624
18820 (Tp_Myb4R1a) SANT

18820 - (Tp_Myb4R1a) SANT

GO Terms:

GO:0003677, GO:0005634

CD Domains:

Go To Gene Page:

18820
20671 hypothetical protein

20671 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20671
21544 hypothetical protein

21544 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21544
21776 hypothetical protein

21776 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21776
22640 hypothetical protein

22640 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22640
22765 hypothetical protein

22765 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22765
24655 hypothetical protein

24655 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24655
24722 hypothetical protein

24722 - hypothetical protein

GO Terms:

GO:0004842, GO:0005622, GO:0006464, GO:0006512

CD Domains:

Go To Gene Page:

24722
25064 hypothetical protein

25064 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25064
25217 hypothetical protein

25217 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25217
25290 hypothetical protein

25290 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25290
25426 hypothetical protein

25426 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25426
261067 alkPPc superfamily

261067 - alkPPc superfamily

GO Terms:

GO:0008152, GO:0004035

CD Domains:

Go To Gene Page:

261067
261613 SPRY_RanBP_like

261613 - SPRY_RanBP_like

GO Terms:

GO:0016755, GO:0030163

CD Domains:

Go To Gene Page:

261613
264335 PIP5K

264335 - PIP5K

GO Terms:

GO:0016308, GO:0004431

CD Domains:

Go To Gene Page:

264335
264395 PI3Kc_like superfamily

264395 - PI3Kc_like superfamily

GO Terms:

GO:0016773

CD Domains:

Go To Gene Page:

264395
268194 (Tp_Myb4R1b) SANT

268194 - (Tp_Myb4R1b) SANT

GO Terms:

GO:0003677, GO:0005634

CD Domains:

Go To Gene Page:

268194
268895 (SIT1) Silic_transp superfamily

268895 - (SIT1) Silic_transp superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

268895
29771 PIKKc_TOR

29771 - PIKKc_TOR

GO Terms:

GO:0016773, GO:0004429, GO:0015072, GO:0015073, GO:0016303

CD Domains:

Go To Gene Page:

29771
35963 CE4_SF superfamily

35963 - CE4_SF superfamily

GO Terms:

GO:0003824, GO:0008152

CD Domains:

Go To Gene Page:

35963
36322 TrmA

36322 - TrmA

GO Terms:

GO:0003723, GO:0006396, GO:0008173, GO:0003923, GO:0016787, GO:0051336

CD Domains:

Go To Gene Page:

36322
3706 hypothetical protein

3706 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3706
3781 hypothetical protein

3781 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3781
40958 (TPI1) TIM

40958 - (TPI1) TIM

GO Terms:

GO:0004807, GO:0008152

CD Domains:

Go To Gene Page:

40958
41392 (SIT2) Silic_transp superfamily

41392 - (SIT2) Silic_transp superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

41392
4355 hypothetical protein

4355 - hypothetical protein

GO Terms:

GO:0008757, GO:0008168

CD Domains:

Go To Gene Page:

4355
4755 GST_C_family superfamily

4755 - GST_C_family superfamily

GO Terms:

GO:0004364

CD Domains:

Go To Gene Page:

4755
4825 hypothetical protein

4825 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4825
4958 hypothetical protein

4958 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4958
5708 hypothetical protein

5708 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5708
6880 hypothetical protein

6880 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6880
8372 hypothetical protein

8372 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8372
9222 COG3899

9222 - COG3899

GO Terms:

GO:0005489, GO:0005507, GO:0006118

CD Domains:

Go To Gene Page:

9222
9479 ATG22

9479 - ATG22

GO Terms:

NA

CD Domains:

Go To Gene Page:

9479
9619 hypothetical protein

9619 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9619
GO ID Go Term p-value q-value Cluster
GO:0051336 regulation of hydrolase activity 0.0129601 1 Thaps_bicluster_0135
GO:0030163 protein catabolism 0.0239497 1 Thaps_bicluster_0135
GO:0008152 metabolism 0.0338556 1 Thaps_bicluster_0135
GO:0006512 ubiquitin cycle 0.065076 1 Thaps_bicluster_0135
GO:0006396 RNA processing 0.102965 1 Thaps_bicluster_0135
GO:0006464 protein modification 0.104655 1 Thaps_bicluster_0135
GO:0006118 electron transport 0.399203 1 Thaps_bicluster_0135
Log in to post comments