Thaps_bicluster_0286 Residual: 0.31
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_0286 0.31 Thalassiosira pseudonana
" class="views-fluidgrid-wrapper clear-block">
Displaying 1 - 24 of 24
" class="views-fluidgrid-wrapper clear-block">
10041 hypothetical protein

10041 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10041
16679 RRM_PPIL4

16679 - RRM_PPIL4

GO Terms:

GO:0003676, GO:0006457, GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

16679
1693 hypothetical protein

1693 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1693
19631 EFh

19631 - EFh

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

19631
20578 hypothetical protein

20578 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20578
22249 ATP12

22249 - ATP12

GO Terms:

NA

CD Domains:

Go To Gene Page:

22249
22690 RRM_Nop6

22690 - RRM_Nop6

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

22690
23144 hypothetical protein

23144 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

23144
24598 Peptidase_C19

24598 - Peptidase_C19

GO Terms:

GO:0004197, GO:0004221, GO:0006511, GO:0003917

CD Domains:

Go To Gene Page:

24598
261117

261117 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

261117
262617 (Tp_Myb2R7) MYB DNA binding protein/ transcription factor-like protein

262617 - (Tp_Myb2R7) MYB DNA binding protein/ transcription factor-like protein

GO Terms:

GO:0003677, GO:0005634

CD Domains:

Go To Gene Page:

262617
264386 (Tp_Myb1R8) MYB DNA binding protein/ transcription factor-like protein

264386 - (Tp_Myb1R8) MYB DNA binding protein/ transcription factor-like protein

GO Terms:

GO:0003677, GO:0005634

CD Domains:

Go To Gene Page:

264386
264498 PRK00142

264498 - PRK00142

GO Terms:

NA

CD Domains:

Go To Gene Page:

264498
268655 HDAC_classII_2

268655 - HDAC_classII_2

GO Terms:

NA

CD Domains:

Go To Gene Page:

268655
269723 hypothetical protein

269723 - hypothetical protein

GO Terms:

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

CD Domains:

Go To Gene Page:

269723
3026 PseudoU_synth superfamily

3026 - PseudoU_synth superfamily

GO Terms:

GO:0003723, GO:0006396, GO:0009982

CD Domains:

Go To Gene Page:

3026
3049 hypothetical protein

3049 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3049
32713 DnaJ

32713 - DnaJ

GO Terms:

GO:0006457, GO:0031072, GO:0051082

CD Domains:

Go To Gene Page:

32713
33182 S_TKc

33182 - S_TKc

GO Terms:

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

CD Domains:

Go To Gene Page:

33182
35929 (MAPKKK) S_TKc

35929 - (MAPKKK) S_TKc

GO Terms:

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

CD Domains:

Go To Gene Page:

35929
4038 hypothetical protein

4038 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

4038
5266 hypothetical protein

5266 - hypothetical protein

GO Terms:

GO:0004197, GO:0006508

CD Domains:

Go To Gene Page:

5266
6265 hypothetical protein

6265 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6265
6591 GluZincin superfamily

6591 - GluZincin superfamily

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

6591
GO ID Go Term p-value q-value Cluster
GO:0006457 protein folding 0.013778 1 Thaps_bicluster_0286
GO:0006468 protein amino acid phosphorylation 0.0350131 1 Thaps_bicluster_0286
GO:0006511 ubiquitin-dependent protein catabolism 0.0715551 1 Thaps_bicluster_0286
GO:0006396 RNA processing 0.081025 1 Thaps_bicluster_0286
GO:0006508 proteolysis and peptidolysis 0.349482 1 Thaps_bicluster_0286
Log in to post comments