Thaps_bicluster_0085 Residual: 0.45
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_0085 0.45 Thalassiosira pseudonana
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Displaying 1 - 31 of 31
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1720 hypothetical protein

1720 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1720
21381 hypothetical protein

21381 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21381
21586 hypothetical protein

21586 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

21586
21613 hypothetical protein

21613 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21613
22227 hypothetical protein

22227 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22227
23396 hypothetical protein

23396 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23396
23432 hypothetical protein

23432 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23432
23828 hypothetical protein

23828 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23828
24011 hypothetical protein

24011 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

24011
24366 hypothetical protein

24366 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24366
24417 CBM35_pectate_lyase-like

24417 - CBM35_pectate_lyase-like

GO Terms:

GO:0030246

CD Domains:

Go To Gene Page:

24417
24606 hypothetical protein

24606 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24606
24668 hypothetical protein

24668 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24668
25422 hypothetical protein

25422 - hypothetical protein

GO Terms:

GO:0005576, GO:0006030, GO:0008061

CD Domains:

Go To Gene Page:

25422
25423 hypothetical protein

25423 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25423
25463 hypothetical protein

25463 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25463
25590 hypothetical protein

25590 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25590
262153 Glyco_18

262153 - Glyco_18

GO Terms:

GO:0008152, GO:0016787, GO:0004568, GO:0008843

CD Domains:

Go To Gene Page:

262153
262535 NrfG

262535 - NrfG

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

262535
263557 hypothetical protein

263557 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

263557
263782 glycoside hydrolase

263782 - glycoside hydrolase

GO Terms:

GO:0003824, GO:0005975

CD Domains:

Go To Gene Page:

263782
264804 hypothetical protein

264804 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

264804
268185 hypothetical protein

268185 - hypothetical protein

GO Terms:

GO:0005215, GO:0006810, GO:0016020

CD Domains:

Go To Gene Page:

268185
268740 PDEase_I

268740 - PDEase_I

GO Terms:

GO:0004114, GO:0007165, GO:0051342

CD Domains:

Go To Gene Page:

268740
270271 hypothetical protein

270271 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270271
28842 PDI_a_family

28842 - PDI_a_family

GO Terms:

NA

CD Domains:

Go To Gene Page:

28842
5201 MATE_like superfamily

5201 - MATE_like superfamily

GO Terms:

GO:0006855, GO:0015238, GO:0015297, GO:0016020

CD Domains:

Go To Gene Page:

5201
7366 hypothetical protein

7366 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7366
7873 hypothetical protein

7873 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7873
803 Synaptobrevin

803 - Synaptobrevin

GO Terms:

GO:0016021, GO:0016192

CD Domains:

Go To Gene Page:

803
8732 hypothetical protein

8732 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8732
GO ID Go Term p-value q-value Cluster
GO:0030163 protein catabolic process 0.00454357 1 Thaps_bicluster_0085
GO:0051342 regulation of cyclic nucleotide phosphodiesterase activity 0.0113237 1 Thaps_bicluster_0085
GO:0006855 multidrug transport 0.0158205 1 Thaps_bicluster_0085
GO:0008152 metabolism 0.620117 1 Thaps_bicluster_0085
GO:0006508 proteolysis 0.0314132 1 Thaps_bicluster_0085
GO:0016192 vesicle-mediated transport 0.0358268 1 Thaps_bicluster_0085
GO:0006030 chitin metabolism 0.0467809 1 Thaps_bicluster_0085
GO:0007165 signal transduction 0.0873827 1 Thaps_bicluster_0085
GO:0005975 carbohydrate metabolism 0.158085 1 Thaps_bicluster_0085
GO:0006810 transport 0.347574 1 Thaps_bicluster_0085
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