Thaps_bicluster_0152 Residual: 0.38
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_0152 0.38 Thalassiosira pseudonana
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Displaying 1 - 32 of 32
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10379 hypothetical protein

10379 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10379
10475 hypothetical protein

10475 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10475
10564 DadA

10564 - DadA

GO Terms:

NA

CD Domains:

Go To Gene Page:

10564
11341 AAT_like

11341 - AAT_like

GO Terms:

GO:0009058, GO:0016769

CD Domains:

Go To Gene Page:

11341
1382 GAT_1 superfamily

1382 - GAT_1 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

1382
15819 Arginase_HDAC superfamily

15819 - Arginase_HDAC superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

15819
16039 MutS

16039 - MutS

GO Terms:

GO:0003684, GO:0005524, GO:0006298

CD Domains:

Go To Gene Page:

16039
20619 hypothetical protein

20619 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20619
21308 RING

21308 - RING

GO Terms:

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

CD Domains:

Go To Gene Page:

21308
21827 hypothetical protein

21827 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21827
2310 hypothetical protein

2310 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2310
2451 PH-like superfamily

2451 - PH-like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

2451
25325 hypothetical protein

25325 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25325
25565 hypothetical protein

25565 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25565
263404 Peptidase_C1 superfamily

263404 - Peptidase_C1 superfamily

GO Terms:

GO:0004197, GO:0006508, GO:0008234

CD Domains:

Go To Gene Page:

263404
264145 HA

264145 - HA

GO Terms:

NA

CD Domains:

Go To Gene Page:

264145
268652 ATG11 superfamily

268652 - ATG11 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

268652
268823 Aa_trans superfamily

268823 - Aa_trans superfamily

GO Terms:

GO:0005279, GO:0006865, GO:0016020

CD Domains:

Go To Gene Page:

268823
2773 hypothetical protein

2773 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2773
28413 BglB superfamily

28413 - BglB superfamily

GO Terms:

GO:0004553, GO:0005975, GO:0015926, GO:0008422

CD Domains:

Go To Gene Page:

28413
32899 HlyIII superfamily

32899 - HlyIII superfamily

GO Terms:

GO:0016021

CD Domains:

Go To Gene Page:

32899
33717 PLN02856

33717 - PLN02856

GO Terms:

GO:0003824, GO:0005737, GO:0009072, GO:0016034

CD Domains:

Go To Gene Page:

33717
4482 hypothetical protein

4482 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4482
5051 hypothetical protein

5051 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5051
5820 hypothetical protein

5820 - hypothetical protein

GO Terms:

GO:0004842

CD Domains:

Go To Gene Page:

5820
6818 AAT_I superfamily

6818 - AAT_I superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

6818
6826 PH-like superfamily

6826 - PH-like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

6826
8445 hypothetical protein

8445 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8445
9410 Transglut_core

9410 - Transglut_core

GO Terms:

GO:0004182, GO:0006508

CD Domains:

Go To Gene Page:

9410
GO ID Go Term p-value q-value Cluster
GO:0009072 aromatic amino acid family metabolism 0.00619065 1 Thaps_bicluster_0152
GO:0006298 mismatch repair 0.0326202 1 Thaps_bicluster_0152
GO:0006865 amino acid transport 0.0584155 1 Thaps_bicluster_0152
GO:0009058 biosynthesis 0.108157 1 Thaps_bicluster_0152
GO:0006508 proteolysis and peptidolysis 0.115922 1 Thaps_bicluster_0152
GO:0005975 carbohydrate metabolism 0.144797 1 Thaps_bicluster_0152
GO:0016567 protein ubiquitination 0.15196 1 Thaps_bicluster_0152
GO:0006468 protein amino acid phosphorylation 0.362866 1 Thaps_bicluster_0152
GO:0006355 regulation of transcription, DNA-dependent 0.481263 1 Thaps_bicluster_0152
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