Thaps_bicluster_0255 Residual: 0.31
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_0255 0.31 Thalassiosira pseudonana
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Displaying 1 - 26 of 26
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10158 hypothetical protein

10158 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10158
11294 XendoU

11294 - XendoU

GO Terms:

NA

CD Domains:

Go To Gene Page:

11294
11750 VPS9

11750 - VPS9

GO Terms:

GO:0007242

CD Domains:

Go To Gene Page:

11750
20665 hypothetical protein

20665 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20665
20753 PDI_a_family

20753 - PDI_a_family

GO Terms:

GO:0005489, GO:0006118

CD Domains:

Go To Gene Page:

20753
21469 hypothetical protein

21469 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21469
23010 TDP2

23010 - TDP2

GO Terms:

NA

CD Domains:

Go To Gene Page:

23010
23137 hypothetical protein

23137 - hypothetical protein

GO Terms:

GO:0005215, GO:0006810, GO:0016020

CD Domains:

Go To Gene Page:

23137
2317 Mito_carr

2317 - Mito_carr

GO Terms:

GO:0005488, GO:0006810, GO:0016020, GO:0005743

CD Domains:

Go To Gene Page:

2317
23586 hypothetical protein

23586 - hypothetical protein

GO Terms:

GO:0005524, GO:0016887

CD Domains:

Go To Gene Page:

23586
24178 (Tp_Hox3) regulator [Rayko]

24178 - (Tp_Hox3) regulator [Rayko]

GO Terms:

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

CD Domains:

Go To Gene Page:

24178
25052 hypothetical protein

25052 - hypothetical protein

GO Terms:

GO:0003677, GO:0005634

CD Domains:

Go To Gene Page:

25052
25254 hypothetical protein

25254 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25254
25363 Zw10 superfamily

25363 - Zw10 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

25363
262874 TIP120 superfamily

262874 - TIP120 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

262874
263315 Peptidase_C65

263315 - Peptidase_C65

GO Terms:

GO:0008233, GO:0008234

CD Domains:

Go To Gene Page:

263315
267964 Cullin

267964 - Cullin

GO Terms:

GO:0007049

CD Domains:

Go To Gene Page:

267964
269060 Arginase_HDAC superfamily

269060 - Arginase_HDAC superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

269060
3694 hypothetical protein

3694 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3694
3842 hypothetical protein

3842 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3842
38559 (GSK-3) PKc_like superfamily

38559 - (GSK-3) PKc_like superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

38559
4445 hypothetical protein

4445 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4445
6233 DUF4239

6233 - DUF4239

GO Terms:

NA

CD Domains:

Go To Gene Page:

6233
7216 hypothetical protein

7216 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7216
8262 hypothetical protein

8262 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8262
8986 hypothetical protein

8986 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8986
GO ID Go Term p-value q-value Cluster
GO:0007049 cell cycle 0.0100926 1 Thaps_bicluster_0255
GO:0006810 transport 0.026643 1 Thaps_bicluster_0255
GO:0007242 intracellular signaling cascade 0.0592567 1 Thaps_bicluster_0255
GO:0006468 protein amino acid phosphorylation 0.270534 1 Thaps_bicluster_0255
GO:0006118 electron transport 0.327122 1 Thaps_bicluster_0255
GO:0006355 regulation of transcription, DNA-dependent 0.368277 1 Thaps_bicluster_0255
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