Thaps_bicluster_0292 Residual: 0.20
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_0292 0.20 Thalassiosira pseudonana
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Displaying 1 - 15 of 15
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1111 GINS_A_psf3

1111 - GINS_A_psf3

GO Terms:

NA

CD Domains:

Go To Gene Page:

1111
11958 Nuf2 superfamily

11958 - Nuf2 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

11958
2267 hypothetical protein

2267 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2267
23012 hypothetical protein

23012 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

23012
36441 CYCLIN

36441 - CYCLIN

GO Terms:

GO:0000074, GO:0005634

CD Domains:

Go To Gene Page:

36441
36753 Motor_domain superfamily

36753 - Motor_domain superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

36753
4217 hypothetical protein

4217 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4217
42365 Smc

42365 - Smc

GO Terms:

GO:0006118, GO:0005524, GO:0005694, GO:0051276, GO:0016887, GO:0005515

CD Domains:

Go To Gene Page:

42365
4688 hypothetical protein

4688 - hypothetical protein

GO Terms:

GO:0003910

CD Domains:

Go To Gene Page:

4688
4729 Glycos_transf_1 superfamily

4729 - Glycos_transf_1 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

4729
4808 hypothetical protein

4808 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

4808
7206 hypothetical protein

7206 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7206
8536 CDC6

8536 - CDC6

GO Terms:

GO:0000166, GO:0017111, GO:0004308

CD Domains:

Go To Gene Page:

8536
9101 hypothetical protein

9101 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9101
9684 TIMELESS superfamily

9684 - TIMELESS superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

9684
GO ID Go Term p-value q-value Cluster
GO:0006118 electron transport 0.20254 1 Thaps_bicluster_0292
GO:0000074 regulation of cell cycle 0.0487168 1 Thaps_bicluster_0292
GO:0007018 microtubule-based movement 0.0350986 1 Thaps_bicluster_0292
GO:0051276 chromosome organization and biogenesis 0.00412967 1 Thaps_bicluster_0292
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