Thaps_bicluster_0191 Residual: 0.44
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_0191 0.44 Thalassiosira pseudonana
Displaying 1 - 30 of 30
10254 COG1233

10254 - COG1233

GO Terms:

NA

CD Domains:

Go To Gene Page:

10254
10517 hypothetical protein

10517 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10517
1069 DUF155

1069 - DUF155

GO Terms:

NA

CD Domains:

Go To Gene Page:

1069
11934 hypothetical protein

11934 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11934
16184 Mito_carr

16184 - Mito_carr

GO Terms:

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

CD Domains:

Go To Gene Page:

16184
20565 hypothetical protein

20565 - hypothetical protein

GO Terms:

GO:0004197, GO:0006508

CD Domains:

Go To Gene Page:

20565
20866 hypothetical protein

20866 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20866
20887 RRM_SF

20887 - RRM_SF

GO Terms:

GO:0003676, GO:0008152, GO:0016491

CD Domains:

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20887
23969 hypothetical protein

23969 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23969
24780 hypothetical protein

24780 - hypothetical protein

GO Terms:

GO:0004402

CD Domains:

Go To Gene Page:

24780
25639 APH_ChoK_like superfamily

25639 - APH_ChoK_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

25639
260959 SrmB
260991 DnaJ_bact

260991 - DnaJ_bact

GO Terms:

GO:0006457, GO:0031072, GO:0051082

CD Domains:

Go To Gene Page:

260991
262615 Syja_N

262615 - Syja_N

GO Terms:

NA

CD Domains:

Go To Gene Page:

262615
263266 PRK09372

263266 - PRK09372

GO Terms:

NA

CD Domains:

Go To Gene Page:

263266
263581 2a58

263581 - 2a58

GO Terms:

GO:0006817, GO:0015321, GO:0016020

CD Domains:

Go To Gene Page:

263581
26393 (ubc1) UBCc

26393 - (ubc1) UBCc

GO Terms:

GO:0004840, GO:0006464, GO:0006512, GO:0004842

CD Domains:

Go To Gene Page:

26393
269030 UTP15_C

269030 - UTP15_C

GO Terms:

NA

CD Domains:

Go To Gene Page:

269030
3132 ANK

3132 - ANK

GO Terms:

NA

CD Domains:

Go To Gene Page:

3132
32577 (ASDH) PLN02383

32577 - (ASDH) PLN02383

GO Terms:

GO:0005737, GO:0006520, GO:0016620, GO:0051287, GO:0004073, GO:0009086, GO:0009088

CD Domains:

Go To Gene Page:

32577
34742 cyclophilin superfamily

34742 - cyclophilin superfamily

GO Terms:

GO:0006457, GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

34742
4019 hypothetical protein

4019 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

4019
4330 DUF2256

4330 - DUF2256

GO Terms:

NA

CD Domains:

Go To Gene Page:

4330
4712 Enkurin

4712 - Enkurin

GO Terms:

NA

CD Domains:

Go To Gene Page:

4712
5106 PUB

5106 - PUB

GO Terms:

NA

CD Domains:

Go To Gene Page:

5106
6607 SpoU_methylase superfamily

6607 - SpoU_methylase superfamily

GO Terms:

GO:0003723, GO:0006396, GO:0008173

CD Domains:

Go To Gene Page:

6607
7271 hypothetical protein

7271 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7271
7789 Isoamyl_acetate_hydrolase_like

7789 - Isoamyl_acetate_hydrolase_like

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

7789
9099 hypothetical protein

9099 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9099
GO ID Go Term p-value q-value Cluster
GO:0009086 methionine biosynthesis 0.00495611 1 Thaps_bicluster_0191
GO:0009088 threonine biosynthesis 0.00495611 1 Thaps_bicluster_0191
GO:0006817 phosphate transport 0.0123481 1 Thaps_bicluster_0191
GO:0006457 protein folding 0.0396666 1 Thaps_bicluster_0191
GO:0006520 amino acid metabolism 0.0509288 1 Thaps_bicluster_0191
GO:0006512 ubiquitin cycle 0.0858385 1 Thaps_bicluster_0191
GO:0006396 RNA processing 0.134914 1 Thaps_bicluster_0191
GO:0006464 protein modification 0.137086 1 Thaps_bicluster_0191
GO:0006810 transport 0.372449 1 Thaps_bicluster_0191
GO:0006508 proteolysis and peptidolysis 0.521698 1 Thaps_bicluster_0191
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