Thaps_bicluster_0216 Residual: 0.36
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_0216 0.36 Thalassiosira pseudonana
Displaying 1 - 27 of 27
11710 hypothetical protein

11710 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11710
1194 hypothetical protein

1194 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1194
19158 GRX_PICOT_like

19158 - GRX_PICOT_like

GO Terms:

GO:0005489, GO:0006118, GO:0045454

CD Domains:

Go To Gene Page:

19158
21451 hypothetical protein

21451 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21451
2243 hypothetical protein

2243 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2243
22481 hypothetical protein

22481 - hypothetical protein

GO Terms:

GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

22481
22783 CRCB

22783 - CRCB

GO Terms:

GO:0016020

CD Domains:

Go To Gene Page:

22783
23394 GAT_1 superfamily

23394 - GAT_1 superfamily

GO Terms:

GO:0006508, GO:0008236

CD Domains:

Go To Gene Page:

23394
23786 DUF547 superfamily

23786 - DUF547 superfamily

GO Terms:

GO:0005489, GO:0006118, GO:0045454

CD Domains:

Go To Gene Page:

23786
23841 hypothetical protein

23841 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

23841
24199 hypothetical protein

24199 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24199
24961 hypothetical protein

24961 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24961
25106 hypothetical protein

25106 - hypothetical protein

GO Terms:

GO:0000151, GO:0004842, GO:0016567

CD Domains:

Go To Gene Page:

25106
25322 FlaRed superfamily

25322 - FlaRed superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

25322
25449 hypothetical protein

25449 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25449
25450 hypothetical protein

25450 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25450
25608 hypothetical protein

25608 - hypothetical protein

GO Terms:

GO:0006508, GO:0008237, GO:0008270

CD Domains:

Go To Gene Page:

25608
25626 hypothetical protein

25626 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25626
25901 MviM

25901 - MviM

GO Terms:

GO:0006118, GO:0008152, GO:0016491

CD Domains:

Go To Gene Page:

25901
262597 (FRU2) hypothetical protein

262597 - (FRU2) hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

262597
264399 YafJ

264399 - YafJ

GO Terms:

GO:0008152

CD Domains:

Go To Gene Page:

264399
264918 2A0303

264918 - 2A0303

GO Terms:

GO:0005279, GO:0006865, GO:0016020, GO:0006810

CD Domains:

Go To Gene Page:

264918
268064 (Tp_HSF_2.7d) HSF_DNA-bind superfamily

268064 - (Tp_HSF_2.7d) HSF_DNA-bind superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

268064
268481 (Tp_HSF_2.2a) HSF_DNA-bind

268481 - (Tp_HSF_2.2a) HSF_DNA-bind

GO Terms:

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

CD Domains:

Go To Gene Page:

268481
268516 hypothetical protein

268516 - hypothetical protein

GO Terms:

GO:0008061

CD Domains:

Go To Gene Page:

268516
268653 hypothetical protein

268653 - hypothetical protein

GO Terms:

GO:0004289, GO:0006508

CD Domains:

Go To Gene Page:

268653
2877 hypothetical protein

2877 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2877
GO ID Go Term p-value q-value Cluster
GO:0045454 cell redox homeostasis 0.000319158 0.870345 Thaps_bicluster_0216
GO:0006118 electron transport 0.0457659 1 Thaps_bicluster_0216
GO:0006508 proteolysis and peptidolysis 0.0557851 1 Thaps_bicluster_0216
GO:0006865 amino acid transport 0.0863737 1 Thaps_bicluster_0216
GO:0016567 protein ubiquitination 0.219149 1 Thaps_bicluster_0216
GO:0006355 regulation of transcription, DNA-dependent 0.245811 1 Thaps_bicluster_0216
GO:0008152 metabolism 0.363828 1 Thaps_bicluster_0216
GO:0006810 transport 0.441554 1 Thaps_bicluster_0216
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