Thaps_bicluster_0025 Residual: 0.38
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_0025 0.38 Thalassiosira pseudonana
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Displaying 1 - 39 of 39
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11287 COG3899

11287 - COG3899

GO Terms:

GO:0004672, GO:0005524, GO:0006468

CD Domains:

Go To Gene Page:

11287
17854 HemeO

17854 - HemeO

GO Terms:

GO:0004392

CD Domains:

Go To Gene Page:

17854
19262 hypothetical protein

19262 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

19262
21734 DnaJ-X superfamily

21734 - DnaJ-X superfamily

GO Terms:

GO:0006457, GO:0031072, GO:0051082

CD Domains:

Go To Gene Page:

21734
21813 hypothetical protein

21813 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21813
22694 Mpv17_PMP22

22694 - Mpv17_PMP22

GO Terms:

GO:0008152, GO:0016491, GO:0005215, GO:0006810, GO:0016020, GO:0016021

CD Domains:

Go To Gene Page:

22694
22742 hypothetical protein

22742 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22742
22874 hypothetical protein

22874 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22874
22994 DUF1295 superfamily

22994 - DUF1295 superfamily

GO Terms:

GO:0016021

CD Domains:

Go To Gene Page:

22994
23706 hypothetical protein

23706 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23706
23902 (CLPB1) ClpB_D2-small

23902 - (CLPB1) ClpB_D2-small

GO Terms:

GO:0005524, GO:0000166, GO:0017111

CD Domains:

Go To Gene Page:

23902
24157 hypothetical protein

24157 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24157
24965 hypothetical protein

24965 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24965
25229 Methyltransf_16 superfamily

25229 - Methyltransf_16 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

25229
2526 DOMON_DOH

2526 - DOMON_DOH

GO Terms:

GO:0004500, GO:0006584

CD Domains:

Go To Gene Page:

2526
25552 hypothetical protein

25552 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25552
25797 (Tp_bHLH3) regulator [Rayko]

25797 - (Tp_bHLH3) regulator [Rayko]

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

25797
261823 FIG superfamily

261823 - FIG superfamily

GO Terms:

GO:0005975, GO:0042578, GO:0050278

CD Domains:

Go To Gene Page:

261823
26293 malate_synt_A

26293 - malate_synt_A

GO Terms:

GO:0004474, GO:0006097, GO:0006099

CD Domains:

Go To Gene Page:

26293
2674 hypothetical protein

2674 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2674
270391 hypothetical protein

270391 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270391
27187 (TAL1_1) PTZ00411

27187 - (TAL1_1) PTZ00411

GO Terms:

GO:0005975, GO:0004801, GO:0005737, GO:0006098

CD Domains:

Go To Gene Page:

27187
2895 hypothetical protein

2895 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2895
31894 DUF4149

31894 - DUF4149

GO Terms:

NA

CD Domains:

Go To Gene Page:

31894
32029 Sterol_MT_C superfamily

32029 - Sterol_MT_C superfamily

GO Terms:

GO:0008757, GO:0003838

CD Domains:

Go To Gene Page:

32029
3422 DUF2237 superfamily

3422 - DUF2237 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

3422
34441 Zpr1

34441 - Zpr1

GO Terms:

GO:0005515, GO:0008270

CD Domains:

Go To Gene Page:

34441
37596 SpoT

37596 - SpoT

GO Terms:

GO:0008152, GO:0016597, GO:0003824, GO:0015969

CD Domains:

Go To Gene Page:

37596
39941 PRK13357

39941 - PRK13357

GO Terms:

GO:0003824, GO:0008152, GO:0004084, GO:0009081

CD Domains:

Go To Gene Page:

39941
40489 UAA

40489 - UAA

GO Terms:

NA

CD Domains:

Go To Gene Page:

40489
4745 hypothetical protein

4745 - hypothetical protein

GO Terms:

GO:0004867, GO:0004190, GO:0006508

CD Domains:

Go To Gene Page:

4745
5409 hypothetical protein

5409 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5409
5993 hypothetical protein

5993 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5993
6052 Nop superfamily

6052 - Nop superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

6052
6810 MRP-L27 superfamily

6810 - MRP-L27 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

6810
8134 hypothetical protein

8134 - hypothetical protein

GO Terms:

GO:0000151, GO:0004842, GO:0008270, GO:0016567, GO:0003677, GO:0006355

CD Domains:

Go To Gene Page:

8134
8673 hypothetical protein

8673 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8673
926 hypothetical protein

926 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

926
GO ID Go Term p-value q-value Cluster
GO:0009081 branched chain family amino acid metabolism 0.00742955 1 Thaps_bicluster_0025
GO:0006097 glyoxylate cycle 0.00742955 1 Thaps_bicluster_0025
GO:0015969 guanosine tetraphosphate metabolism 0.0148069 1 Thaps_bicluster_0025
GO:0006584 catecholamine metabolism 0.0148069 1 Thaps_bicluster_0025
GO:0006098 pentose-phosphate shunt 0.0221325 1 Thaps_bicluster_0025
GO:0005975 carbohydrate metabolism 0.030919 1 Thaps_bicluster_0025
GO:0006099 tricarboxylic acid cycle 0.0366296 1 Thaps_bicluster_0025
GO:0006470 protein amino acid dephosphorylation 0.0926133 1 Thaps_bicluster_0025
GO:0008152 metabolism 0.188836 1 Thaps_bicluster_0025
GO:0016567 protein ubiquitination 0.25691 1 Thaps_bicluster_0025
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