Thaps_bicluster_0005 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_0005 0.39 Thalassiosira pseudonana
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Displaying 1 - 53 of 53
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1005 hypothetical protein

1005 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1005
10275 hypothetical protein

10275 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10275
1060 GFA superfamily

1060 - GFA superfamily

GO Terms:

GO:0008152, GO:0016846

CD Domains:

Go To Gene Page:

1060
1080 hypothetical protein

1080 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1080
10805 hypothetical protein

10805 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10805
11019 hypothetical protein

11019 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11019
11109 Na_H_Exchanger

11109 - Na_H_Exchanger

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

11109
11415 hypothetical protein

11415 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11415
1149 hypothetical protein

1149 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1149
1203 PPI_Ypi1

1203 - PPI_Ypi1

GO Terms:

NA

CD Domains:

Go To Gene Page:

1203
12050 Mem_trans superfamily

12050 - Mem_trans superfamily

GO Terms:

GO:0005554, GO:0016021

CD Domains:

Go To Gene Page:

12050
14772 AAT_I superfamily

14772 - AAT_I superfamily

GO Terms:

GO:0006520, GO:0016831, GO:0004351

CD Domains:

Go To Gene Page:

14772
16842 (SAT1) CysE

16842 - (SAT1) CysE

GO Terms:

GO:0005737, GO:0006535, GO:0009001

CD Domains:

Go To Gene Page:

16842
18071 Peptidase_C48 superfamily

18071 - Peptidase_C48 superfamily

GO Terms:

GO:0006508, GO:0008234

CD Domains:

Go To Gene Page:

18071
20600 hypothetical protein

20600 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20600
20955 hypothetical protein

20955 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20955
21342 hypothetical protein

21342 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21342
21666 hypothetical protein

21666 - hypothetical protein

GO Terms:

GO:0004553, GO:0005576, GO:0005975, GO:0030246

CD Domains:

Go To Gene Page:

21666
22052 hypothetical protein

22052 - hypothetical protein

GO Terms:

GO:0006508, GO:0008237, GO:0008270

CD Domains:

Go To Gene Page:

22052
2250 hypothetical protein

2250 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2250
23776 S_TKc

23776 - S_TKc

GO Terms:

GO:0004672, GO:0005524, GO:0006468, GO:0004713, GO:0004674

CD Domains:

Go To Gene Page:

23776
24634 hypothetical protein

24634 - hypothetical protein

GO Terms:

GO:0000285

CD Domains:

Go To Gene Page:

24634
25170 hypothetical protein

25170 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25170
25335 hypothetical protein

25335 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25335
2576 hypothetical protein

2576 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2576
25899 hypothetical protein

25899 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25899
25915 hypothetical protein

25915 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25915
261298 pas-domain protein

261298 - pas-domain protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

261298
262934 hypothetical protein

262934 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

262934
263338

263338 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

263338
264928 FG-GAP_2

264928 - FG-GAP_2

GO Terms:

GO:0007155, GO:0007160, GO:0008305

CD Domains:

Go To Gene Page:

264928
2663 PLDc_Tdp1_2

2663 - PLDc_Tdp1_2

GO Terms:

GO:0005634, GO:0006281, GO:0008081

CD Domains:

Go To Gene Page:

2663
269120 (hsp70) PTZ00009

269120 - (hsp70) PTZ00009

GO Terms:

GO:0005524

CD Domains:

Go To Gene Page:

269120
269391 MATE_like superfamily

269391 - MATE_like superfamily

GO Terms:

GO:0005215, GO:0006810, GO:0016020

CD Domains:

Go To Gene Page:

269391
269400 p450 superfamily

269400 - p450 superfamily

GO Terms:

GO:0006118, GO:0004497, GO:0004796

CD Domains:

Go To Gene Page:

269400
269421 P4Hc

269421 - P4Hc

GO Terms:

GO:0016706, GO:0019538, GO:0004656, GO:0016222

CD Domains:

Go To Gene Page:

269421
27834 PcnB

27834 - PcnB

GO Terms:

GO:0003723, GO:0006396, GO:0016779

CD Domains:

Go To Gene Page:

27834
34785 prfB

34785 - prfB

GO Terms:

GO:0003747, GO:0006415

CD Domains:

Go To Gene Page:

34785
38132 Rhomboid

38132 - Rhomboid

GO Terms:

NA

CD Domains:

Go To Gene Page:

38132
4189 hypothetical protein

4189 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4189
4599 hypothetical protein

4599 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4599
5089 Cluap1

5089 - Cluap1

GO Terms:

NA

CD Domains:

Go To Gene Page:

5089
5513 hypothetical protein

5513 - hypothetical protein

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

5513
5859 COG1233

5859 - COG1233

GO Terms:

GO:0006118

CD Domains:

Go To Gene Page:

5859
6307 hypothetical protein

6307 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6307
6519 LRR_RI superfamily

6519 - LRR_RI superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

6519
6779 hypothetical protein

6779 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6779
6843 hypothetical protein

6843 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6843
7519 hypothetical protein

7519 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7519
7767 hypothetical protein

7767 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7767
8280 hypothetical protein

8280 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8280
9086 (Tp_HSF_1.3i) HSF_DNA-bind superfamily

9086 - (Tp_HSF_1.3i) HSF_DNA-bind superfamily

GO Terms:

GO:0003700, GO:0005634, GO:0006355, GO:0003677

CD Domains:

Go To Gene Page:

9086
9892 hypothetical protein

9892 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9892
GO ID Go Term p-value q-value Cluster
GO:0006535 cysteine biosynthesis from serine 0.0139887 1 Thaps_bicluster_0005
GO:0006415 translational termination 0.0209137 1 Thaps_bicluster_0005
GO:0007160 cell-matrix adhesion 0.0615124 1 Thaps_bicluster_0005
GO:0006520 amino acid metabolism 0.0714116 1 Thaps_bicluster_0005
GO:0007155 cell adhesion 0.100523 1 Thaps_bicluster_0005
GO:0019538 protein metabolism 0.150166 1 Thaps_bicluster_0005
GO:0006281 DNA repair 0.150166 1 Thaps_bicluster_0005
GO:0006396 RNA processing 0.185694 1 Thaps_bicluster_0005
GO:0005975 carbohydrate metabolism 0.233639 1 Thaps_bicluster_0005
GO:0006118 electron transport 0.23943 1 Thaps_bicluster_0005
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