Thaps_bicluster_0283 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_0283 0.35 Thalassiosira pseudonana
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Displaying 1 - 27 of 27
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11698 hypothetical protein

11698 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11698
12100 hypothetical protein

12100 - hypothetical protein

GO Terms:

GO:0003887, GO:0003889, GO:0003890, GO:0003891, GO:0003893, GO:0003894, GO:0003895, GO:0015999, GO:0016000, GO:0016448, GO:0016449, GO:0016450, GO:0016451, GO:0016452, GO:0019984

CD Domains:

Go To Gene Page:

12100
12103 hypothetical protein

12103 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12103
21904 hypothetical protein

21904 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21904
23427 hypothetical protein

23427 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23427
23620 hypothetical protein

23620 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23620
2378 hypothetical protein

2378 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2378
25166 hypothetical protein

25166 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25166
25171 DUF1517 superfamily

25171 - DUF1517 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

25171
261641 NOX_Duox_like_FAD_NADP

261641 - NOX_Duox_like_FAD_NADP

GO Terms:

GO:0006118, GO:0016020, GO:0016491, GO:0000293

CD Domains:

Go To Gene Page:

261641
263883 hypothetical protein

263883 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

263883
264384 hypothetical protein

264384 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

264384
264776 (CLPB2) chaperone_ClpB

264776 - (CLPB2) chaperone_ClpB

GO Terms:

GO:0005524, GO:0000166, GO:0017111, GO:0005515, GO:0019538

CD Domains:

Go To Gene Page:

264776
264807 ATP-synt_C superfamily

264807 - ATP-synt_C superfamily

GO Terms:

GO:0015986, GO:0016021, GO:0016469, GO:0046933, GO:0046961, GO:0003936

CD Domains:

Go To Gene Page:

264807
264811 DUF389

264811 - DUF389

GO Terms:

NA

CD Domains:

Go To Gene Page:

264811
268242 hypothetical protein

268242 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

268242
269653 hypothetical protein

269653 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

269653
269876 hypothetical protein

269876 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

269876
28025 rSAM_SeCys

28025 - rSAM_SeCys

GO Terms:

GO:0003824, GO:0005506

CD Domains:

Go To Gene Page:

28025
30178 PLN03050

30178 - PLN03050

GO Terms:

GO:0005554

CD Domains:

Go To Gene Page:

30178
33316 (DGD1) UGD_SDR_e

33316 - (DGD1) UGD_SDR_e

GO Terms:

GO:0003824, GO:0009225, GO:0008460

CD Domains:

Go To Gene Page:

33316
34094 CdCA1

34094 - CdCA1

GO Terms:

NA

CD Domains:

Go To Gene Page:

34094
3898 hypothetical protein

3898 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3898
40630 SPFH_like_u4

40630 - SPFH_like_u4

GO Terms:

NA

CD Domains:

Go To Gene Page:

40630
42992 (AOX2) AOX

42992 - (AOX2) AOX

GO Terms:

GO:0005740, GO:0007585, GO:0016491, GO:0051341

CD Domains:

Go To Gene Page:

42992
7349 hypothetical protein

7349 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7349
8903 DUF563

8903 - DUF563

GO Terms:

NA

CD Domains:

Go To Gene Page:

8903
GO ID Go Term p-value q-value Cluster
GO:0007585 respiratory gaseous exchange 0.00247959 1 Thaps_bicluster_0283
GO:0009225 nucleotide-sugar metabolism 0.0111179 1 Thaps_bicluster_0283
GO:0051341 regulation of oxidoreductase activity 0.0282075 1 Thaps_bicluster_0283
GO:0015986 ATP synthesis coupled proton transport 0.0557488 1 Thaps_bicluster_0283
GO:0019538 protein metabolism 0.0557488 1 Thaps_bicluster_0283
GO:0006118 electron transport 0.287914 1 Thaps_bicluster_0283
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