Thaps_bicluster_0028 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_0028 0.44 Thalassiosira pseudonana
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Displaying 1 - 45 of 45
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10681 hypothetical protein

10681 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10681
11746 hypothetical protein

11746 - hypothetical protein

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334

CD Domains:

Go To Gene Page:

11746
12163 hypothetical protein

12163 - hypothetical protein

GO Terms:

GO:0003677, GO:0003917, GO:0006265, GO:0006268

CD Domains:

Go To Gene Page:

12163
1407 hypothetical protein

1407 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1407
14347 amino acid transporter

14347 - amino acid transporter

GO Terms:

GO:0005279, GO:0006865, GO:0016020

CD Domains:

Go To Gene Page:

14347
16952 MPP_PhoD

16952 - MPP_PhoD

GO Terms:

NA

CD Domains:

Go To Gene Page:

16952
19069 hypothetical protein

19069 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

19069
20582 hypothetical protein

20582 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20582
20595 Choline_transpo

20595 - Choline_transpo

GO Terms:

NA

CD Domains:

Go To Gene Page:

20595
21594 hypothetical protein

21594 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21594
22025 hypothetical protein

22025 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22025
22733 hypothetical protein

22733 - hypothetical protein

GO Terms:

GO:0005554

CD Domains:

Go To Gene Page:

22733
23597 hypothetical protein

23597 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23597
23937 hypothetical protein

23937 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23937
24022 hypothetical protein

24022 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24022
24480 ECM4

24480 - ECM4

GO Terms:

NA

CD Domains:

Go To Gene Page:

24480
25312 hypothetical protein

25312 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25312
262034 allantoicase

262034 - allantoicase

GO Terms:

GO:0004037

CD Domains:

Go To Gene Page:

262034
262396 Fe_bilin_red superfamily

262396 - Fe_bilin_red superfamily

GO Terms:

GO:0010024, GO:0016636, GO:0050897, GO:0050619

CD Domains:

Go To Gene Page:

262396
263428 WD40 superfamily

263428 - WD40 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

263428
269490 Flavokinase

269490 - Flavokinase

GO Terms:

GO:0008531, GO:0009231

CD Domains:

Go To Gene Page:

269490
2775 OAT_like

2775 - OAT_like

GO Terms:

GO:0008483, GO:0030170

CD Domains:

Go To Gene Page:

2775
2832 hypothetical protein

2832 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2832
2911 hypothetical protein

2911 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2911
33576 SelR superfamily

33576 - SelR superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

33576
3508 hypothetical protein

3508 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3508
3553 hypothetical protein

3553 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3553
35624 Glo_EDI_BRP_like_18

35624 - Glo_EDI_BRP_like_18

GO Terms:

NA

CD Domains:

Go To Gene Page:

35624
36099 IscU_like

36099 - IscU_like

GO Terms:

NA

CD Domains:

Go To Gene Page:

36099
36649 SufE superfamily

36649 - SufE superfamily

GO Terms:

GO:0030528

CD Domains:

Go To Gene Page:

36649
36775 cyclophilin superfamily

36775 - cyclophilin superfamily

GO Terms:

GO:0006457, GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

36775
37739 COG4221

37739 - COG4221

GO Terms:

GO:0004743, GO:0006096, GO:0008152, GO:0016491, GO:0051341

CD Domains:

Go To Gene Page:

37739
39032 sufA

39032 - sufA

GO Terms:

GO:0005554

CD Domains:

Go To Gene Page:

39032
4630 hypothetical protein

4630 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4630
5276 Aldo_ket_red

5276 - Aldo_ket_red

GO Terms:

GO:0016491, GO:0051341

CD Domains:

Go To Gene Page:

5276
5938 hypothetical protein

5938 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5938
6093 hypothetical protein

6093 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6093
6911 (Tp_CCCH10) regulator [Rayko]

6911 - (Tp_CCCH10) regulator [Rayko]

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

6911
8094 hypothetical protein

8094 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8094
8448 hypothetical protein

8448 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8448
8689 hypothetical protein

8689 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8689
8866 hypothetical protein

8866 - hypothetical protein

GO Terms:

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

CD Domains:

Go To Gene Page:

8866
8907 SYLF superfamily

8907 - SYLF superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

8907
9730 hypothetical protein

9730 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9730
9975 HA

9975 - HA

GO Terms:

NA

CD Domains:

Go To Gene Page:

9975
GO ID Go Term p-value q-value Cluster
GO:0051341 regulation of oxidoreductase activity 0.00138692 1 Thaps_bicluster_0028
GO:0010024 phytochromobilin biosynthesis 0.00495611 1 Thaps_bicluster_0028
GO:0006268 DNA unwinding 0.0123481 1 Thaps_bicluster_0028
GO:0009231 riboflavin biosynthesis 0.0148008 1 Thaps_bicluster_0028
GO:0006265 DNA topological change 0.0245562 1 Thaps_bicluster_0028
GO:0006865 amino acid transport 0.0696965 1 Thaps_bicluster_0028
GO:0006334 nucleosome assembly 0.074335 1 Thaps_bicluster_0028
GO:0006096 glycolysis 0.0881234 1 Thaps_bicluster_0028
GO:0016567 protein ubiquitination 0.179494 1 Thaps_bicluster_0028
GO:0006457 protein folding 0.279136 1 Thaps_bicluster_0028
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