Thaps_bicluster_0243 Residual: 0.36
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_0243 0.36 Thalassiosira pseudonana
" class="views-fluidgrid-wrapper clear-block">
Displaying 1 - 27 of 27
" class="views-fluidgrid-wrapper clear-block">
13459 HslU

13459 - HslU

GO Terms:

GO:0005524, GO:0000166, GO:0017111, GO:0005515, GO:0015031, GO:0016887

CD Domains:

Go To Gene Page:

13459
2006 hypothetical protein

2006 - hypothetical protein

GO Terms:

GO:0004553, GO:0005975, GO:0004308

CD Domains:

Go To Gene Page:

2006
20869 hypothetical protein

20869 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20869
21405 hypothetical protein

21405 - hypothetical protein

GO Terms:

GO:0005524, GO:0015986, GO:0016469, GO:0046933, GO:0046961

CD Domains:

Go To Gene Page:

21405
21680 hypothetical protein

21680 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21680
22008 Vps16_N superfamily

22008 - Vps16_N superfamily

GO Terms:

GO:0003824, GO:0008152

CD Domains:

Go To Gene Page:

22008
23987 hypothetical protein

23987 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

23987
24534 hypothetical protein

24534 - hypothetical protein

GO Terms:

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

CD Domains:

Go To Gene Page:

24534
24920 hypothetical protein

24920 - hypothetical protein

GO Terms:

GO:0005529

CD Domains:

Go To Gene Page:

24920
25198 HA

25198 - HA

GO Terms:

NA

CD Domains:

Go To Gene Page:

25198
25347 hypothetical protein

25347 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25347
25495 ALDH_F6_MMSDH

25495 - ALDH_F6_MMSDH

GO Terms:

GO:0008152, GO:0016491, GO:0004491, GO:0006573

CD Domains:

Go To Gene Page:

25495
261225 COG3899

261225 - COG3899

GO Terms:

NA

CD Domains:

Go To Gene Page:

261225
262068 Lipase_3

262068 - Lipase_3

GO Terms:

GO:0008270

CD Domains:

Go To Gene Page:

262068
263012 Ras_like_GTPase superfamily

263012 - Ras_like_GTPase superfamily

GO Terms:

GO:0005525, GO:0007264, GO:0005509, GO:0015031

CD Domains:

Go To Gene Page:

263012
263343 CitE

263343 - CitE

GO Terms:

GO:0008152, GO:0016491

CD Domains:

Go To Gene Page:

263343
264523 Abhydrolase_3

264523 - Abhydrolase_3

GO Terms:

GO:0003824, GO:0004620, GO:0016298, GO:0016789, GO:0018731, GO:0018732, GO:0018733, GO:0018734

CD Domains:

Go To Gene Page:

264523
268335 ELFV_dehydrog

268335 - ELFV_dehydrog

GO Terms:

GO:0006520, GO:0016491

CD Domains:

Go To Gene Page:

268335
34900 PLN02658

34900 - PLN02658

GO Terms:

GO:0004411, GO:0006559, GO:0006570

CD Domains:

Go To Gene Page:

34900
4726 hypothetical protein

4726 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4726
6048 hypothetical protein

6048 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6048
7174 hypothetical protein

7174 - hypothetical protein

GO Terms:

GO:0005215, GO:0005622, GO:0006810

CD Domains:

Go To Gene Page:

7174
7752 hypothetical protein

7752 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7752
7819 hypothetical protein

7819 - hypothetical protein

GO Terms:

GO:0008757

CD Domains:

Go To Gene Page:

7819
8915 hypothetical protein

8915 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8915
9173 hypothetical protein

9173 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9173
GO ID Go Term p-value q-value Cluster
GO:0006559 L-phenylalanine catabolism 0.0031011 1 Thaps_bicluster_0243
GO:0006570 tyrosine metabolism 0.0031011 1 Thaps_bicluster_0243
GO:0015031 protein transport 0.0075326 1 Thaps_bicluster_0243
GO:0006573 valine metabolism 0.0123506 1 Thaps_bicluster_0243
GO:0006520 amino acid metabolism 0.0632695 1 Thaps_bicluster_0243
GO:0006470 protein amino acid dephosphorylation 0.0777727 1 Thaps_bicluster_0243
GO:0007264 small GTPase mediated signal transduction 0.100543 1 Thaps_bicluster_0243
GO:0008152 metabolism 0.126308 1 Thaps_bicluster_0243
GO:0015986 ATP synthesis coupled proton transport 0.133715 1 Thaps_bicluster_0243
GO:0005975 carbohydrate metabolism 0.209229 1 Thaps_bicluster_0243
Log in to post comments