Thaps_bicluster_0247 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_0247 0.36 Thalassiosira pseudonana
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Displaying 1 - 31 of 31
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10111 Aldo_ket_red

10111 - Aldo_ket_red

GO Terms:

GO:0016491

CD Domains:

Go To Gene Page:

10111
10628 hypothetical protein

10628 - hypothetical protein

GO Terms:

GO:0005506, GO:0009058, GO:0016491

CD Domains:

Go To Gene Page:

10628
11747 hypothetical protein

11747 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11747
12011 Translin superfamily

12011 - Translin superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

12011
22095 DUF726 superfamily

22095 - DUF726 superfamily

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

22095
2333 hypothetical protein

2333 - hypothetical protein

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

2333
23740 DUF72

23740 - DUF72

GO Terms:

GO:0008152, GO:0016491

CD Domains:

Go To Gene Page:

23740
23747 hypothetical protein

23747 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23747
25076 S1_like superfamily

25076 - S1_like superfamily

GO Terms:

GO:0003723

CD Domains:

Go To Gene Page:

25076
25297 Chorein_N

25297 - Chorein_N

GO Terms:

NA

CD Domains:

Go To Gene Page:

25297
25517 hypothetical protein

25517 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25517
25547 PTZ00121

25547 - PTZ00121

GO Terms:

NA

CD Domains:

Go To Gene Page:

25547
25650 hypothetical protein

25650 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25650
25753 PLN02371

25753 - PLN02371

GO Terms:

GO:0005975, GO:0016868, GO:0004615

CD Domains:

Go To Gene Page:

25753
261431 ABC_ATPase superfamily

261431 - ABC_ATPase superfamily

GO Terms:

GO:0005524, GO:0016887, GO:0000166, GO:0017111

CD Domains:

Go To Gene Page:

261431
261908 PLN02889

261908 - PLN02889

GO Terms:

GO:0003824, GO:0009058, GO:0004049, GO:0008152, GO:0016833, GO:0005950

CD Domains:

Go To Gene Page:

261908
264268 REC

264268 - REC

GO Terms:

GO:0000156, GO:0000160, GO:0003677, GO:0006355

CD Domains:

Go To Gene Page:

264268
264647 p450 superfamily

264647 - p450 superfamily

GO Terms:

GO:0006118, GO:0004497

CD Domains:

Go To Gene Page:

264647
270115 Glyco_transf_64 superfamily

270115 - Glyco_transf_64 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

270115
29867 (ACS2_1) PLN02736

29867 - (ACS2_1) PLN02736

GO Terms:

GO:0003824, GO:0008152, GO:0004467

CD Domains:

Go To Gene Page:

29867
3107 hypothetical protein

3107 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3107
3114 PRX_BCP

3114 - PRX_BCP

GO Terms:

NA

CD Domains:

Go To Gene Page:

3114
31543 AAA

31543 - AAA

GO Terms:

GO:0000166, GO:0017111, GO:0005524, GO:0008568

CD Domains:

Go To Gene Page:

31543
33859 pntA

33859 - pntA

GO Terms:

GO:0006118, GO:0008746, GO:0008750, GO:0015992, GO:0016491

CD Domains:

Go To Gene Page:

33859
36572 MviM

36572 - MviM

GO Terms:

GO:0006118, GO:0008152, GO:0016491, GO:0047115

CD Domains:

Go To Gene Page:

36572
38991 COG1565

38991 - COG1565

GO Terms:

NA

CD Domains:

Go To Gene Page:

38991
4751 hypothetical protein

4751 - hypothetical protein

GO Terms:

GO:0004867, GO:0004190, GO:0006508

CD Domains:

Go To Gene Page:

4751
4991 hypothetical protein

4991 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4991
6592 TroA-like superfamily

6592 - TroA-like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

6592
6692 hypothetical protein

6692 - hypothetical protein

GO Terms:

GO:0005515, GO:0003677

CD Domains:

Go To Gene Page:

6692
8990 DAP2

8990 - DAP2

GO Terms:

NA

CD Domains:

Go To Gene Page:

8990
GO ID Go Term p-value q-value Cluster
GO:0009058 biosynthesis 0.0105846 1 Thaps_bicluster_0247
GO:0008152 metabolism 0.0250553 1 Thaps_bicluster_0247
GO:0006118 electron transport 0.03812 1 Thaps_bicluster_0247
GO:0015992 proton transport 0.0426071 1 Thaps_bicluster_0247
GO:0000160 two-component signal transduction system (phosphorelay) 0.0754724 1 Thaps_bicluster_0247
GO:0005975 carbohydrate metabolism 0.196738 1 Thaps_bicluster_0247
GO:0006508 proteolysis and peptidolysis 0.577098 1 Thaps_bicluster_0247
GO:0006355 regulation of transcription, DNA-dependent 0.6012 1 Thaps_bicluster_0247
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