Thaps_bicluster_0165 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_0165 0.36 Thalassiosira pseudonana
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Displaying 1 - 23 of 23
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12061 Lactamase_B superfamily

12061 - Lactamase_B superfamily

GO Terms:

GO:0042781

CD Domains:

Go To Gene Page:

12061
21398 hypothetical protein

21398 - hypothetical protein

GO Terms:

GO:0003910

CD Domains:

Go To Gene Page:

21398
21491 hypothetical protein

21491 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21491
22170 PCI

22170 - PCI

GO Terms:

NA

CD Domains:

Go To Gene Page:

22170
23539 Oligomerization

23539 - Oligomerization

GO Terms:

NA

CD Domains:

Go To Gene Page:

23539
262914 (HSP90_2) HSP90 superfamily

262914 - (HSP90_2) HSP90 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

262914
264306 UT superfamily

264306 - UT superfamily

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

264306
268451 SrmB

268451 - SrmB

GO Terms:

GO:0003700, GO:0005622, GO:0006355, GO:0005524, GO:0008026, GO:0003676, GO:0004386

CD Domains:

Go To Gene Page:

268451
268500 PRK05218

268500 - PRK05218

GO Terms:

GO:0006457, GO:0051082, GO:0005524, GO:0003763

CD Domains:

Go To Gene Page:

268500
268629 PseudoU_synth_RluCD_like

268629 - PseudoU_synth_RluCD_like

GO Terms:

GO:0003723, GO:0006396, GO:0009982, GO:0004730

CD Domains:

Go To Gene Page:

268629
31438 HEAT_2

31438 - HEAT_2

GO Terms:

NA

CD Domains:

Go To Gene Page:

31438
32788 Terminase_GpA superfamily

32788 - Terminase_GpA superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

32788
32816 DUF155 superfamily

32816 - DUF155 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

32816
34221 DEXDc superfamily

34221 - DEXDc superfamily

GO Terms:

GO:0003676, GO:0005524, GO:0008026, GO:0004386, GO:0000810, GO:0004787, GO:0008722, GO:0008758, GO:0008796, GO:0008828, GO:0016462, GO:0016818, GO:0019176, GO:0019177

CD Domains:

Go To Gene Page:

34221
34735 DRE_TIM_metallolyase superfamily

34735 - DRE_TIM_metallolyase superfamily

GO Terms:

GO:0003824, GO:0005506

CD Domains:

Go To Gene Page:

34735
36053 Pkinase

36053 - Pkinase

GO Terms:

GO:0004672, GO:0005524, GO:0006468, GO:0004713, GO:0004674

CD Domains:

Go To Gene Page:

36053
36321 hypothetical protein

36321 - hypothetical protein

GO Terms:

GO:0000139, GO:0005351, GO:0008643, GO:0016021

CD Domains:

Go To Gene Page:

36321
37881 DUF3172 superfamily

37881 - DUF3172 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

37881
5667 hypothetical protein

5667 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5667
6285 (HSP90_1) PTZ00272

6285 - (HSP90_1) PTZ00272

GO Terms:

GO:0006457, GO:0051082, GO:0005524, GO:0003763

CD Domains:

Go To Gene Page:

6285
7742 KTI12

7742 - KTI12

GO Terms:

NA

CD Domains:

Go To Gene Page:

7742
9831 hypothetical protein

9831 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9831
GO ID Go Term p-value q-value Cluster
GO:0006457 protein folding 0.0100167 1 Thaps_bicluster_0165
GO:0008643 carbohydrate transport 0.0172498 1 Thaps_bicluster_0165
GO:0006396 RNA processing 0.0698579 1 Thaps_bicluster_0165
GO:0006468 protein amino acid phosphorylation 0.236888 1 Thaps_bicluster_0165
GO:0006355 regulation of transcription, DNA-dependent 0.325408 1 Thaps_bicluster_0165
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