Thaps_bicluster_0143 Residual: 0.26
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_0143 0.26 Thalassiosira pseudonana
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Displaying 1 - 15 of 15
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1356 hypothetical protein

1356 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1356
1422 Cnd3

1422 - Cnd3

GO Terms:

NA

CD Domains:

Go To Gene Page:

1422
20673 PTZ00121

20673 - PTZ00121

GO Terms:

NA

CD Domains:

Go To Gene Page:

20673
20798 Cnd1

20798 - Cnd1

GO Terms:

GO:0005634, GO:0007067, GO:0030261

CD Domains:

Go To Gene Page:

20798
21159 hypothetical protein

21159 - hypothetical protein

GO Terms:

GO:0000074, GO:0005634

CD Domains:

Go To Gene Page:

21159
25910 hypothetical protein

25910 - hypothetical protein

GO Terms:

GO:0004812, GO:0005524, GO:0006418

CD Domains:

Go To Gene Page:

25910
261217 spindle assembly checkpoint serine/threonine-protein kinase

261217 - spindle assembly checkpoint serine/threonine-protein kinase

GO Terms:

GO:0004672, GO:0005524, GO:0006468

CD Domains:

Go To Gene Page:

261217
262006 alpha_CA_prokaryotic_like

262006 - alpha_CA_prokaryotic_like

GO Terms:

GO:0004089, GO:0006730, GO:0008270

CD Domains:

Go To Gene Page:

262006
262009 alpha_CA superfamily

262009 - alpha_CA superfamily

GO Terms:

GO:0004089, GO:0006730, GO:0008270

CD Domains:

Go To Gene Page:

262009
262102 KISc

262102 - KISc

GO Terms:

GO:0003777, GO:0005524, GO:0005875, GO:0007018

CD Domains:

Go To Gene Page:

262102
3124 Cnd2 superfamily

3124 - Cnd2 superfamily

GO Terms:

GO:0000278, GO:0005634, GO:0007067

CD Domains:

Go To Gene Page:

3124
4041 HEC1

4041 - HEC1

GO Terms:

NA

CD Domains:

Go To Gene Page:

4041
5263 hypothetical protein

5263 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5263
8205 hypothetical protein

8205 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8205
8829 hypothetical protein

8829 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8829
GO ID Go Term p-value q-value Cluster
GO:0007067 mitosis 0.0000115 0.0317992 Thaps_bicluster_0143
GO:0006730 one-carbon compound metabolism 0.0000804 0.22065 Thaps_bicluster_0143
GO:0030261 chromosome condensation 0.0020674 1 Thaps_bicluster_0143
GO:0000278 mitotic cell cycle 0.0020674 1 Thaps_bicluster_0143
GO:0007018 microtubule-based movement 0.0855012 1 Thaps_bicluster_0143
GO:0006418 tRNA aminoacylation for protein translation 0.111884 1 Thaps_bicluster_0143
GO:0000074 regulation of cell cycle 0.117447 1 Thaps_bicluster_0143
GO:0006468 protein amino acid phosphorylation 0.362866 1 Thaps_bicluster_0143
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