Thaps_bicluster_0157 Residual: 0.39
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_0157 0.39 Thalassiosira pseudonana
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Displaying 1 - 30 of 30
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10053 hypothetical protein

10053 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

10053
11212 Membrane-FADS-like superfamily

11212 - Membrane-FADS-like superfamily

GO Terms:

GO:0016491

CD Domains:

Go To Gene Page:

11212
11434 hypothetical protein

11434 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11434
17511 DUS_like_FMN

17511 - DUS_like_FMN

GO Terms:

NA

CD Domains:

Go To Gene Page:

17511
20825 hypothetical protein

20825 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20825
20833 Methyltransf_16 superfamily

20833 - Methyltransf_16 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

20833
21545 hypothetical protein

21545 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21545
21769 Methyltransf_21 superfamily

21769 - Methyltransf_21 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

21769
21886 hypothetical protein

21886 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21886
22427 hypothetical protein

22427 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22427
22593 hypothetical protein

22593 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22593
22809 Patatin_and_cPLA2 superfamily

22809 - Patatin_and_cPLA2 superfamily

GO Terms:

GO:0003824, GO:0045735

CD Domains:

Go To Gene Page:

22809
22826 hypothetical protein

22826 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22826
23568 hypothetical protein

23568 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23568
23966 hypothetical protein

23966 - hypothetical protein

GO Terms:

GO:0004402

CD Domains:

Go To Gene Page:

23966
24545 hypothetical protein

24545 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24545
24750 hypothetical protein

24750 - hypothetical protein

GO Terms:

GO:0031177

CD Domains:

Go To Gene Page:

24750
25767 hypothetical protein

25767 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25767
261852 AdoMet_MTases superfamily

261852 - AdoMet_MTases superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

261852
262047 Ube1

262047 - Ube1

GO Terms:

GO:0004839, GO:0006464, GO:0006512, GO:0003824, GO:0004842

CD Domains:

Go To Gene Page:

262047
3135 hypothetical protein

3135 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3135
31380 hypothetical protein

31380 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

31380
3189 hypothetical protein

3189 - hypothetical protein

GO Terms:

GO:0004812, GO:0005524, GO:0006418

CD Domains:

Go To Gene Page:

3189
31938 Pumilio

31938 - Pumilio

GO Terms:

GO:0003723, GO:0016071

CD Domains:

Go To Gene Page:

31938
33619 GTP_cyclohydro2

33619 - GTP_cyclohydro2

GO Terms:

GO:0003935, GO:0009231

CD Domains:

Go To Gene Page:

33619
36334 Uup

36334 - Uup

GO Terms:

GO:0005524, GO:0016887, GO:0000166, GO:0017111

CD Domains:

Go To Gene Page:

36334
41038 (P5CS) PLN02418

41038 - (P5CS) PLN02418

GO Terms:

GO:0004350, GO:0006561, GO:0008652, GO:0004349

CD Domains:

Go To Gene Page:

41038
5553 hypothetical protein

5553 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5553
5907 hypothetical protein

5907 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5907
7450 hypothetical protein

7450 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7450
GO ID Go Term p-value q-value Cluster
GO:0006561 proline biosynthesis 0.00577795 1 Thaps_bicluster_0157
GO:0009231 riboflavin biosynthesis 0.00865617 1 Thaps_bicluster_0157
GO:0016071 mRNA metabolism 0.0129601 1 Thaps_bicluster_0157
GO:0008652 amino acid biosynthesis 0.0158205 1 Thaps_bicluster_0157
GO:0006512 ubiquitin cycle 0.0509804 1 Thaps_bicluster_0157
GO:0006418 tRNA aminoacylation for protein translation 0.0796772 1 Thaps_bicluster_0157
GO:0006464 protein modification 0.0823711 1 Thaps_bicluster_0157
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