Thaps_bicluster_0267 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_0267 0.26 Thalassiosira pseudonana
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Displaying 1 - 16 of 16
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11041 hypothetical protein

11041 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

11041
11557 PhyH superfamily

11557 - PhyH superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

11557
11707 VDE superfamily

11707 - VDE superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

11707
11760 hypothetical protein

11760 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11760
1464 hypothetical protein

1464 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1464
1724 hypothetical protein

1724 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1724
1786 hypothetical protein

1786 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

1786
21114 Vac14_Fab1_bd

21114 - Vac14_Fab1_bd

GO Terms:

NA

CD Domains:

Go To Gene Page:

21114
22689 Chalcone superfamily

22689 - Chalcone superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

22689
2767 AarF

2767 - AarF

GO Terms:

NA

CD Domains:

Go To Gene Page:

2767
3622 CDP-ME_synthetase

3622 - CDP-ME_synthetase

GO Terms:

GO:0008299, GO:0008699, GO:0050518

CD Domains:

Go To Gene Page:

3622
36431 cyclophilin_TLP40_like

36431 - cyclophilin_TLP40_like

GO Terms:

GO:0006457

CD Domains:

Go To Gene Page:

36431
3884 hypothetical protein

3884 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3884
4040 hypothetical protein

4040 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4040
6759 hypothetical protein

6759 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6759
8085 hypothetical protein

8085 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8085
GO ID Go Term p-value q-value Cluster
GO:0008299 isoprenoid biosynthesis 0.00680831 1 Thaps_bicluster_0267
GO:0006457 protein folding 0.0784967 1 Thaps_bicluster_0267
GO:0006468 protein amino acid phosphorylation 0.1264 1 Thaps_bicluster_0267
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