Thaps_bicluster_0035 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_0035 0.44 Thalassiosira pseudonana
Displaying 1 - 44 of 44
10479 hypothetical protein

10479 - hypothetical protein

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

10479
10673 hypothetical protein

10673 - hypothetical protein

GO Terms:

GO:0003677, GO:0005634, GO:0003676, GO:0005622

CD Domains:

Go To Gene Page:

10673
10860 Methyltransf_21

10860 - Methyltransf_21

GO Terms:

NA

CD Domains:

Go To Gene Page:

10860
10867 GH43_62_32_68 superfamily

10867 - GH43_62_32_68 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

10867
10925 hypothetical protein

10925 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10925
10976 RluA

10976 - RluA

GO Terms:

GO:0003723, GO:0006396, GO:0009982, GO:0004730

CD Domains:

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10976
11127 hypothetical protein

11127 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11127
11372 hypothetical protein

11372 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11372
11404 hypothetical protein

11404 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11404
11529 hypothetical protein

11529 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11529
12183 hypothetical protein

12183 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12183
18220 Rab2

18220 - Rab2

GO Terms:

GO:0005525, GO:0007264, GO:0006886, GO:0000160, GO:0003677, GO:0006355, GO:0015031, GO:0003924, GO:0003925

CD Domains:

Go To Gene Page:

18220
20746 hypothetical protein

20746 - hypothetical protein

GO Terms:

GO:0004402

CD Domains:

Go To Gene Page:

20746
20754 hypothetical protein

20754 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

20754
21339 hypothetical protein

21339 - hypothetical protein

GO Terms:

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

CD Domains:

Go To Gene Page:

21339
21679 hypothetical protein

21679 - hypothetical protein

GO Terms:

GO:0005489, GO:0006118, GO:0005506

CD Domains:

Go To Gene Page:

21679
21819 PX_SNX_like

21819 - PX_SNX_like

GO Terms:

GO:0007242

CD Domains:

Go To Gene Page:

21819
21955 hypothetical protein

21955 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21955
22319 WD40 superfamily

22319 - WD40 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

22319
22867 hypothetical protein

22867 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22867
23621 hypothetical protein

23621 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23621
24340 MFS

24340 - MFS

GO Terms:

NA

CD Domains:

Go To Gene Page:

24340
24353 hypothetical protein

24353 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24353
24464 hypothetical protein

24464 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

24464
24974 AAA superfamily

24974 - AAA superfamily

GO Terms:

GO:0005524, GO:0006915

CD Domains:

Go To Gene Page:

24974
25101 hypothetical protein

25101 - hypothetical protein

GO Terms:

GO:0005249, GO:0006813, GO:0008076, GO:0005261, GO:0006812, GO:0016020, GO:0005216, GO:0006811

CD Domains:

Go To Gene Page:

25101
261001 hypothetical protein

261001 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

261001
262070 WD40

262070 - WD40

GO Terms:

GO:0000250

CD Domains:

Go To Gene Page:

262070
264377 (PSB7) proteasome_beta_type_7

264377 - (PSB7) proteasome_beta_type_7

GO Terms:

GO:0004175, GO:0005839, GO:0006511, GO:0004298, GO:0004299

CD Domains:

Go To Gene Page:

264377
3242 hypothetical protein

3242 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3242
35721 PTZ00273

35721 - PTZ00273

GO Terms:

GO:0005506, GO:0016216, GO:0017000

CD Domains:

Go To Gene Page:

35721
3804 hypothetical protein

3804 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3804
38651 DUF778

38651 - DUF778

GO Terms:

NA

CD Domains:

Go To Gene Page:

38651
3929 Peptidase_C48 superfamily

3929 - Peptidase_C48 superfamily

GO Terms:

GO:0006508, GO:0008234, GO:0004197, GO:0016946

CD Domains:

Go To Gene Page:

3929
3935 hypothetical protein

3935 - hypothetical protein

GO Terms:

GO:0005515

CD Domains:

Go To Gene Page:

3935
6165 SHQ1 superfamily

6165 - SHQ1 superfamily

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

6165
7213 hypothetical protein

7213 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7213
7440 hypothetical protein

7440 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7440
7964 (PSB4) proteasome_beta_type_2

7964 - (PSB4) proteasome_beta_type_2

GO Terms:

GO:0004298, GO:0005839, GO:0006511, GO:0004299

CD Domains:

Go To Gene Page:

7964
8482 hypothetical protein

8482 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8482
8706 UgpQ

8706 - UgpQ

GO Terms:

GO:0004182, GO:0006508

CD Domains:

Go To Gene Page:

8706
9636 hypothetical protein

9636 - hypothetical protein

GO Terms:

GO:0007218

CD Domains:

Go To Gene Page:

9636
988 YjgF_YER057c_UK114_like_1

988 - YjgF_YER057c_UK114_like_1

GO Terms:

NA

CD Domains:

Go To Gene Page:

988
9966 Methyltransf_21

9966 - Methyltransf_21

GO Terms:

NA

CD Domains:

Go To Gene Page:

9966
GO ID Go Term p-value q-value Cluster
GO:0007218 neuropeptide signaling pathway 0.00392806 1 Thaps_bicluster_0035
GO:0006915 apoptosis 0.0156247 1 Thaps_bicluster_0035
GO:0006511 ubiquitin-dependent protein catabolism 0.0166229 1 Thaps_bicluster_0035
GO:0017000 antibiotic biosynthesis 0.0194946 1 Thaps_bicluster_0035
GO:0006811 ion transport 0.0685095 1 Thaps_bicluster_0035
GO:0006813 potassium ion transport 0.0831178 1 Thaps_bicluster_0035
GO:0000160 two-component signal transduction system (phosphorelay) 0.101073 1 Thaps_bicluster_0035
GO:0007264 small GTPase mediated signal transduction 0.125652 1 Thaps_bicluster_0035
GO:0007242 intracellular signaling cascade 0.152962 1 Thaps_bicluster_0035
GO:0015031 protein transport 0.156318 1 Thaps_bicluster_0035
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