Thaps_bicluster_0096 Residual: 0.39
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_0096 0.39 Thalassiosira pseudonana
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Displaying 1 - 36 of 36
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10566 Na_Ca_ex

10566 - Na_Ca_ex

GO Terms:

GO:0016021

CD Domains:

Go To Gene Page:

10566
11588 hypothetical protein

11588 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11588
12810 KAP95

12810 - KAP95

GO Terms:

GO:0000059, GO:0005634, GO:0005643, GO:0005737, GO:0008565

CD Domains:

Go To Gene Page:

12810
16440 (RP3A) RNAP_RPB11_RPB3 superfamily

16440 - (RP3A) RNAP_RPB11_RPB3 superfamily

GO Terms:

GO:0003899, GO:0006350, GO:0046983, GO:0003900, GO:0003901, GO:0003902

CD Domains:

Go To Gene Page:

16440
21014 hypothetical protein

21014 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21014
21659 hypothetical protein

21659 - hypothetical protein

GO Terms:

GO:0005351, GO:0009401

CD Domains:

Go To Gene Page:

21659
22311 hypothetical protein

22311 - hypothetical protein

GO Terms:

GO:0005515, GO:0005524, GO:0044267, GO:0003910

CD Domains:

Go To Gene Page:

22311
23403 ANK

23403 - ANK

GO Terms:

NA

CD Domains:

Go To Gene Page:

23403
23954 hypothetical protein

23954 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23954
24110 hypothetical protein

24110 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24110
24680 hypothetical protein

24680 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24680
24801 hypothetical protein

24801 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24801
25351 hypothetical protein

25351 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25351
25548 hypothetical protein

25548 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25548
25701 hypothetical protein

25701 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25701
25703 hypothetical protein

25703 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25703
25766 hypothetical protein

25766 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25766
32229 MogA_MoaB

32229 - MogA_MoaB

GO Terms:

GO:0006777

CD Domains:

Go To Gene Page:

32229
32273 PCI superfamily

32273 - PCI superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

32273
33476 diphth2_R

33476 - diphth2_R

GO Terms:

NA

CD Domains:

Go To Gene Page:

33476
3404 hypothetical protein

3404 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3404
34487 MgtA

34487 - MgtA

GO Terms:

GO:0003700, GO:0005622, GO:0006355, GO:0005524, GO:0015662, GO:0015992, GO:0016020, GO:0006812, GO:0003824, GO:0008152, GO:0016820, GO:0005388

CD Domains:

Go To Gene Page:

34487
34541 MgtA

34541 - MgtA

GO Terms:

GO:0003700, GO:0005622, GO:0006355, GO:0005524, GO:0015662, GO:0015992, GO:0016020, GO:0006812, GO:0003824, GO:0008152, GO:0016820, GO:0005388

CD Domains:

Go To Gene Page:

34541
35723 HepA

35723 - HepA

GO Terms:

GO:0003677, GO:0005524

CD Domains:

Go To Gene Page:

35723
35933 Paf67 superfamily

35933 - Paf67 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

35933
37442 Ribosomal_L7Ae

37442 - Ribosomal_L7Ae

GO Terms:

GO:0030529, GO:0042254

CD Domains:

Go To Gene Page:

37442
38207 SecE superfamily

38207 - SecE superfamily

GO Terms:

GO:0006605, GO:0006886, GO:0016020, GO:0015031, GO:0015450

CD Domains:

Go To Gene Page:

38207
38472 HA2

38472 - HA2

GO Terms:

NA

CD Domains:

Go To Gene Page:

38472
5590 hypothetical protein

5590 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5590
6562 hypothetical protein

6562 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6562
7771 hypothetical protein

7771 - hypothetical protein

GO Terms:

GO:0003725, GO:0005622

CD Domains:

Go To Gene Page:

7771
8940 hypothetical protein

8940 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8940
8967 ANK

8967 - ANK

GO Terms:

NA

CD Domains:

Go To Gene Page:

8967
916 (Tp_CCHH2) regulator [Rayko]

916 - (Tp_CCHH2) regulator [Rayko]

GO Terms:

GO:0003676, GO:0005634, GO:0008270

CD Domains:

Go To Gene Page:

916
9754 hypothetical protein

9754 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9754
GO ID Go Term p-value q-value Cluster
GO:0015992 proton transport 0.00133471 1 Thaps_bicluster_0096
GO:0006812 cation transport 0.0107924 1 Thaps_bicluster_0096
GO:0000059 protein-nucleus import, docking 0.0184762 1 Thaps_bicluster_0096
GO:0006777 Mo-molybdopterin cofactor biosynthesis 0.0221325 1 Thaps_bicluster_0096
GO:0042254 ribosome biogenesis and assembly 0.025776 1 Thaps_bicluster_0096
GO:0006605 protein targeting 0.025776 1 Thaps_bicluster_0096
GO:0044267 cellular protein metabolism 0.0509236 1 Thaps_bicluster_0096
GO:0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system 0.0650171 1 Thaps_bicluster_0096
GO:0006413 translational initiation 0.0857873 1 Thaps_bicluster_0096
GO:0006350 transcription 0.106121 1 Thaps_bicluster_0096
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