Thaps_bicluster_0113 Residual: 0.35
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_0113 0.35 Thalassiosira pseudonana
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Displaying 1 - 27 of 27
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11718 hypothetical protein

11718 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11718
11762 hypothetical protein

11762 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11762
11902 RPA_2b-aaRSs_OBF_like superfamily

11902 - RPA_2b-aaRSs_OBF_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

11902
12172 hypothetical protein

12172 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12172
1765 hypothetical protein

1765 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1765
18434 PIPKc superfamily

18434 - PIPKc superfamily

GO Terms:

GO:0016308

CD Domains:

Go To Gene Page:

18434
22112 Vps54 superfamily

22112 - Vps54 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

22112
2224 hypothetical protein

2224 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2224
22916 DUF1162 superfamily

22916 - DUF1162 superfamily

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

22916
2314 hypothetical protein

2314 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2314
23614 hypothetical protein

23614 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23614
23952 hypothetical protein

23952 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23952
2502 hypothetical protein

2502 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2502
261754 SUL1

261754 - SUL1

GO Terms:

NA

CD Domains:

Go To Gene Page:

261754
264058 phosphatase 2A (PP2A) regulatory subunit B-like protein-like protein

264058 - phosphatase 2A (PP2A) regulatory subunit B-like protein-like protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

264058
33092 RINGv superfamily

33092 - RINGv superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

33092
3611 MIT_CorA-like superfamily

3611 - MIT_CorA-like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

3611
3751 hypothetical protein
37942 hypothetical protein

37942 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

37942
41637 Patatin_and_cPLA2 superfamily

41637 - Patatin_and_cPLA2 superfamily

GO Terms:

GO:0003824, GO:0045735

CD Domains:

Go To Gene Page:

41637
5010 (Tp_HSF_3.6b) HSF_DNA-bind superfamily

5010 - (Tp_HSF_3.6b) HSF_DNA-bind superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

5010
6784 hypothetical protein

6784 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6784
7633 FPL superfamily

7633 - FPL superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

7633
8576 Ion_trans_2

8576 - Ion_trans_2

GO Terms:

GO:0005267, GO:0006813, GO:0016020

CD Domains:

Go To Gene Page:

8576
9431 DUF399 superfamily

9431 - DUF399 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

9431
9491 hypothetical protein

9491 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

9491
9693 hypothetical protein

9693 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9693
GO ID Go Term p-value q-value Cluster
GO:0006355 regulation of transcription, DNA-dependent 0.178613 1 Thaps_bicluster_0113
GO:0016567 protein ubiquitination 0.0482112 1 Thaps_bicluster_0113
GO:0006813 potassium ion transport 0.0135857 1 Thaps_bicluster_0113
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