Thaps_bicluster_0008 Residual: 0.44
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_0008 0.44 Thalassiosira pseudonana
" class="views-fluidgrid-wrapper clear-block">
Displaying 1 - 36 of 36
" class="views-fluidgrid-wrapper clear-block">
11177 hypothetical protein

11177 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11177
12166 hypothetical protein

12166 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12166
14700 WD40 superfamily

14700 - WD40 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

14700
16378 Glyco_tranf_GTA_type superfamily

16378 - Glyco_tranf_GTA_type superfamily

GO Terms:

GO:0004581

CD Domains:

Go To Gene Page:

16378
18047 PAP2_dolichyldiphosphatase

18047 - PAP2_dolichyldiphosphatase

GO Terms:

GO:0047874

CD Domains:

Go To Gene Page:

18047
19141 PRK09267

19141 - PRK09267

GO Terms:

GO:0005489, GO:0006118, GO:0010181, GO:0016491

CD Domains:

Go To Gene Page:

19141
20916 RNase_H2-B superfamily

20916 - RNase_H2-B superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

20916
21020 hypothetical protein

21020 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21020
21525 hypothetical protein

21525 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21525
22530 hypothetical protein

22530 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22530
23224 PAP2_C

23224 - PAP2_C

GO Terms:

NA

CD Domains:

Go To Gene Page:

23224
23554 hypothetical protein

23554 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23554
2369 hypothetical protein

2369 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2369
24755 hypothetical protein

24755 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24755
24806 hypothetical protein

24806 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24806
25194 hypothetical protein

25194 - hypothetical protein

GO Terms:

GO:0008757

CD Domains:

Go To Gene Page:

25194
25575 HTTM superfamily

25575 - HTTM superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

25575
25742 hypothetical protein

25742 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25742
25852 Peptidase_A22B superfamily

25852 - Peptidase_A22B superfamily

GO Terms:

GO:0005215, GO:0005576, GO:0006810, GO:0008717, GO:0016021

CD Domains:

Go To Gene Page:

25852
25854 Peptidase_C48 superfamily

25854 - Peptidase_C48 superfamily

GO Terms:

GO:0006508, GO:0008234, GO:0004197, GO:0016946

CD Domains:

Go To Gene Page:

25854
262203 (TAL1_2) Lipase superfamily

262203 - (TAL1_2) Lipase superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

262203
263252

263252 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

263252
2634 hypothetical protein

2634 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2634
264326 probable cytochrome P450

264326 - probable cytochrome P450

GO Terms:

NA

CD Domains:

Go To Gene Page:

264326
264937 hypothetical protein

264937 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

264937
30193 (URE) PLN02303

30193 - (URE) PLN02303

GO Terms:

GO:0006807, GO:0009039, GO:0016151, GO:0016787

CD Domains:

Go To Gene Page:

30193
31266 IPP_Isomerase

31266 - IPP_Isomerase

GO Terms:

GO:0004452, GO:0008299

CD Domains:

Go To Gene Page:

31266
3261 hypothetical protein

3261 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3261
3402 hypothetical protein

3402 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3402
35611 PLN00158

35611 - PLN00158

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

35611
3598 hypothetical protein

3598 - hypothetical protein

GO Terms:

GO:0004190, GO:0006508

CD Domains:

Go To Gene Page:

3598
37098 PCD_DCoH_subfamily_b

37098 - PCD_DCoH_subfamily_b

GO Terms:

GO:0008124

CD Domains:

Go To Gene Page:

37098
4315 (Tp_HSF_1.2b) HSF_DNA-bind

4315 - (Tp_HSF_1.2b) HSF_DNA-bind

GO Terms:

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

CD Domains:

Go To Gene Page:

4315
6661 hypothetical protein

6661 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6661
6885 S_TKc

6885 - S_TKc

GO Terms:

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

CD Domains:

Go To Gene Page:

6885
8769 hypothetical protein

8769 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8769
GO ID Go Term p-value q-value Cluster
GO:0008299 isoprenoid biosynthesis 0.0225308 1 Thaps_bicluster_0008
GO:0006807 nitrogen compound metabolism 0.0225308 1 Thaps_bicluster_0008
GO:0007001 chromosome organization and biogenesis (sensu Eukaryota) 0.0584155 1 Thaps_bicluster_0008
GO:0006334 nucleosome assembly 0.0623285 1 Thaps_bicluster_0008
GO:0006508 proteolysis and peptidolysis 0.115922 1 Thaps_bicluster_0008
GO:0006810 transport 0.321719 1 Thaps_bicluster_0008
GO:0006468 protein amino acid phosphorylation 0.362866 1 Thaps_bicluster_0008
GO:0006118 electron transport 0.432304 1 Thaps_bicluster_0008
GO:0006355 regulation of transcription, DNA-dependent 0.481263 1 Thaps_bicluster_0008
Log in to post comments