Thaps_bicluster_0290 Residual: 0.30
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_0290 0.30 Thalassiosira pseudonana
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Displaying 1 - 16 of 16
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10083 hypothetical protein

10083 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10083
12140 hypothetical protein

12140 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12140
12182 hypothetical protein

12182 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12182
14707 Motor_domain superfamily

14707 - Motor_domain superfamily

GO Terms:

GO:0003777, GO:0005524, GO:0005875, GO:0007018, GO:0008574

CD Domains:

Go To Gene Page:

14707
1930 hypothetical protein

1930 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1930
1977 hypothetical protein

1977 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1977
20954 (Tp_CXC3) TCR

20954 - (Tp_CXC3) TCR

GO Terms:

NA

CD Domains:

Go To Gene Page:

20954
23223 hypothetical protein

23223 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

23223
263598 FH2 superfamily

263598 - FH2 superfamily

GO Terms:

GO:0003779, GO:0016043

CD Domains:

Go To Gene Page:

263598
263798 incenp-like protein

263798 - incenp-like protein

GO Terms:

GO:0003677

CD Domains:

Go To Gene Page:

263798
34403 KISc_KIF2_like

34403 - KISc_KIF2_like

GO Terms:

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

CD Domains:

Go To Gene Page:

34403
37302 Abhydrolase_5

37302 - Abhydrolase_5

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

37302
4640 hypothetical protein

4640 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4640
8181 hypothetical protein

8181 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

8181
9286 Tryp_SPc

9286 - Tryp_SPc

GO Terms:

GO:0004295, GO:0006508, GO:0004263, GO:0004252, GO:0004289, GO:0008132, GO:0008243, GO:0008991, GO:0016808

CD Domains:

Go To Gene Page:

9286
9990 hypothetical protein

9990 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9990
GO ID Go Term p-value q-value Cluster
GO:0016043 cell organization and biogenesis 0.00412967 1 Thaps_bicluster_0290
GO:0007018 microtubule-based movement 0.000458019 1 Thaps_bicluster_0290
GO:0006508 proteolysis and peptidolysis 0.217787 1 Thaps_bicluster_0290
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