Thaps_bicluster_0217 Residual: 0.33
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_0217 0.33 Thalassiosira pseudonana
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Displaying 1 - 25 of 25
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10740 hypothetical protein

10740 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10740
11841 hypothetical protein

11841 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11841
17623 SUMT

17623 - SUMT

GO Terms:

GO:0008152, GO:0008168, GO:0006779, GO:0004851

CD Domains:

Go To Gene Page:

17623
20827 hypothetical protein

20827 - hypothetical protein

GO Terms:

GO:0031177

CD Domains:

Go To Gene Page:

20827
20829 HPP

20829 - HPP

GO Terms:

NA

CD Domains:

Go To Gene Page:

20829
21143 hypothetical protein

21143 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21143
21623 hypothetical protein

21623 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21623
22251 hypothetical protein

22251 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22251
22720 hypothetical protein

22720 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22720
22731 hypothetical protein

22731 - hypothetical protein

GO Terms:

GO:0000151, GO:0004842, GO:0008270, GO:0016567

CD Domains:

Go To Gene Page:

22731
24172 hypothetical protein

24172 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24172
24341 DnaJ

24341 - DnaJ

GO Terms:

GO:0006457, GO:0031072, GO:0051082

CD Domains:

Go To Gene Page:

24341
25123 hypothetical protein

25123 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25123
268279 hypothetical protein

268279 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

268279
269213 hypothetical protein

269213 - hypothetical protein

GO Terms:

GO:0005489, GO:0006118

CD Domains:

Go To Gene Page:

269213
32758 Ntn_hydrolase superfamily

32758 - Ntn_hydrolase superfamily

GO Terms:

GO:0004175, GO:0005839, GO:0006511, GO:0004298, GO:0004299

CD Domains:

Go To Gene Page:

32758
39516 PLN02951

39516 - PLN02951

GO Terms:

GO:0003824, GO:0005506, GO:0006777, GO:0019008

CD Domains:

Go To Gene Page:

39516
4067 hypothetical protein

4067 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4067
4919 hypothetical protein

4919 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4919
5394 hypothetical protein

5394 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5394
5424 hypothetical protein

5424 - hypothetical protein

GO Terms:

GO:0000151, GO:0004842, GO:0008270, GO:0016567

CD Domains:

Go To Gene Page:

5424
6370 SpoU_methylase superfamily

6370 - SpoU_methylase superfamily

GO Terms:

GO:0003723, GO:0006396, GO:0008173

CD Domains:

Go To Gene Page:

6370
6958 (Tp_HSF_4e) HSF_DNA-bind

6958 - (Tp_HSF_4e) HSF_DNA-bind

GO Terms:

GO:0003700, GO:0005634, GO:0006355, GO:0003677

CD Domains:

Go To Gene Page:

6958
8407 hypothetical protein

8407 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8407
8521 PseudoU_synth superfamily

8521 - PseudoU_synth superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

8521
GO ID Go Term p-value q-value Cluster
GO:0016567 protein ubiquitination 0.0108879 1 Thaps_bicluster_0217
GO:0006777 Mo-molybdopterin cofactor biosynthesis 0.0123468 1 Thaps_bicluster_0217
GO:0006779 porphyrin biosynthesis 0.0225308 1 Thaps_bicluster_0217
GO:0006511 ubiquitin-dependent protein catabolism 0.100662 1 Thaps_bicluster_0217
GO:0006396 RNA processing 0.113742 1 Thaps_bicluster_0217
GO:0006457 protein folding 0.238676 1 Thaps_bicluster_0217
GO:0006118 electron transport 0.432304 1 Thaps_bicluster_0217
GO:0006355 regulation of transcription, DNA-dependent 0.481263 1 Thaps_bicluster_0217
GO:0008152 metabolism 0.585137 1 Thaps_bicluster_0217
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