Thaps_bicluster_0118 Residual: 0.28
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_0118 0.28 Thalassiosira pseudonana
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Displaying 1 - 23 of 23
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10277 hypothetical protein

10277 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10277
1091 hypothetical protein

1091 - hypothetical protein

GO Terms:

GO:0016706, GO:0019538

CD Domains:

Go To Gene Page:

1091
1219 PAP_fibrillin superfamily

1219 - PAP_fibrillin superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

1219
1450 hypothetical protein

1450 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1450
3166 hypothetical protein

3166 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3166
3299 hypothetical protein

3299 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3299
3300 hypothetical protein

3300 - hypothetical protein

GO Terms:

GO:0008757

CD Domains:

Go To Gene Page:

3300
33231 PLN02779

33231 - PLN02779

GO Terms:

GO:0003824, GO:0008152

CD Domains:

Go To Gene Page:

33231
36091 DUF2499

36091 - DUF2499

GO Terms:

NA

CD Domains:

Go To Gene Page:

36091
36203 (SMT1) Sterol_MT_C superfamily

36203 - (SMT1) Sterol_MT_C superfamily

GO Terms:

GO:0003838

CD Domains:

Go To Gene Page:

36203
5063 hypothetical protein

5063 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5063
5188 pyrophosphatase

5188 - pyrophosphatase

GO Terms:

GO:0000287, GO:0008152, GO:0016462, GO:0004427, GO:0005737

CD Domains:

Go To Gene Page:

5188
5367 hypothetical protein

5367 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5367
5785 hypothetical protein

5785 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5785
6155 hypothetical protein

6155 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6155
6431 hypothetical protein

6431 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6431
6736 hypothetical protein

6736 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6736
6905 hypothetical protein

6905 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6905
719 PLN02433

719 - PLN02433

GO Terms:

GO:0004853, GO:0006779

CD Domains:

Go To Gene Page:

719
7541 hypothetical protein

7541 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7541
8426 hypothetical protein

8426 - hypothetical protein

GO Terms:

GO:0005488, GO:0006810, GO:0016020

CD Domains:

Go To Gene Page:

8426
8670 hypothetical protein

8670 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8670
976 hypothetical protein

976 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

976
GO ID Go Term p-value q-value Cluster
GO:0006796 phosphate metabolic process 0.00124044 1 Thaps_bicluster_0118
GO:0006779 porphyrin biosynthesis 0.0135745 1 Thaps_bicluster_0118
GO:0019538 protein metabolism 0.0557488 1 Thaps_bicluster_0118
GO:0008152 metabolism 0.0844211 1 Thaps_bicluster_0118
GO:0006810 transport 0.207702 1 Thaps_bicluster_0118
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