Thaps_bicluster_0099 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_0099 0.44 Thalassiosira pseudonana
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Displaying 1 - 30 of 30
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1053 hypothetical protein

1053 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1053
18795 (Tp_Myb3R7) SANT

18795 - (Tp_Myb3R7) SANT

GO Terms:

GO:0003677, GO:0005634

CD Domains:

Go To Gene Page:

18795
19345 HepA

19345 - HepA

GO Terms:

GO:0005524, GO:0008026, GO:0003676, GO:0004386

CD Domains:

Go To Gene Page:

19345
1942 hypothetical protein

1942 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1942
1975 hypothetical protein

1975 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1975
22484 hypothetical protein

22484 - hypothetical protein

GO Terms:

GO:0003735, GO:0005622, GO:0005840, GO:0006412

CD Domains:

Go To Gene Page:

22484
22642 SET

22642 - SET

GO Terms:

NA

CD Domains:

Go To Gene Page:

22642
23000 hypothetical protein

23000 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23000
23054 hypothetical protein

23054 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23054
23561 hypothetical protein

23561 - hypothetical protein

GO Terms:

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

CD Domains:

Go To Gene Page:

23561
23773 hypothetical protein

23773 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23773
25324 hypothetical protein

25324 - hypothetical protein

GO Terms:

GO:0007155, GO:0007160, GO:0008305

CD Domains:

Go To Gene Page:

25324
25621 hypothetical protein

25621 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25621
2774 hypothetical protein

2774 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2774
29304 (TUB1) PLN00221

29304 - (TUB1) PLN00221

GO Terms:

GO:0005198, GO:0005874, GO:0007018, GO:0003924, GO:0005525, GO:0043234, GO:0051258

CD Domains:

Go To Gene Page:

29304
3279 hypothetical protein

3279 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3279
3537 hypothetical protein

3537 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3537
3649 hypothetical protein

3649 - hypothetical protein

GO Terms:

GO:0005351, GO:0009401

CD Domains:

Go To Gene Page:

3649
36522 (TOP2) PLN03128

36522 - (TOP2) PLN03128

GO Terms:

GO:0003677, GO:0003918, GO:0005524, GO:0006259, GO:0006265, GO:0005634

CD Domains:

Go To Gene Page:

36522
36788 PLN02438

36788 - PLN02438

GO Terms:

GO:0004512, GO:0006021, GO:0008654

CD Domains:

Go To Gene Page:

36788
3765 hypothetical protein

3765 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3765
38187 Peptidase_C14

38187 - Peptidase_C14

GO Terms:

GO:0006508, GO:0030693

CD Domains:

Go To Gene Page:

38187
38732 BaeS

38732 - BaeS

GO Terms:

NA

CD Domains:

Go To Gene Page:

38732
38948 Peptidase_C97

38948 - Peptidase_C97

GO Terms:

NA

CD Domains:

Go To Gene Page:

38948
6104 hypothetical protein

6104 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6104
6408 hypothetical protein

6408 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6408
6957 hypothetical protein

6957 - hypothetical protein

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

6957
7036 WD40 superfamily

7036 - WD40 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

7036
9238 hypothetical protein

9238 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9238
9414 hypothetical protein

9414 - hypothetical protein

GO Terms:

GO:0004221

CD Domains:

Go To Gene Page:

9414
GO ID Go Term p-value q-value Cluster
GO:0006021 myo-inositol biosynthesis 0.00454357 1 Thaps_bicluster_0099
GO:0051258 protein polymerization 0.0180619 1 Thaps_bicluster_0099
GO:0006265 DNA topological change 0.0225308 1 Thaps_bicluster_0099
GO:0006259 DNA metabolism 0.0314132 1 Thaps_bicluster_0099
GO:0008654 phospholipid biosynthesis 0.0314132 1 Thaps_bicluster_0099
GO:0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system 0.0402221 1 Thaps_bicluster_0099
GO:0007160 cell-matrix adhesion 0.0402221 1 Thaps_bicluster_0099
GO:0007155 cell adhesion 0.0662137 1 Thaps_bicluster_0099
GO:0007018 microtubule-based movement 0.0936478 1 Thaps_bicluster_0099
GO:0006412 protein biosynthesis 0.319237 1 Thaps_bicluster_0099
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