Thaps_bicluster_0009 Residual: 0.42
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_0009 0.42 Thalassiosira pseudonana
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Displaying 1 - 47 of 47
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10046 hypothetical protein

10046 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10046
10537 DEXDc

10537 - DEXDc

GO Terms:

GO:0005524, GO:0008026, GO:0003676, GO:0004386

CD Domains:

Go To Gene Page:

10537
10768 hypothetical protein

10768 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10768
11211 Reprolysin_5

11211 - Reprolysin_5

GO Terms:

GO:0004222, GO:0006508, GO:0008237, GO:0008270

CD Domains:

Go To Gene Page:

11211
11604 hypothetical protein

11604 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11604
11629 hypothetical protein

11629 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11629
12008 hypothetical protein

12008 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12008
12079 hypothetical protein

12079 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12079
12087 hypothetical protein

12087 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12087
12153 hypothetical protein

12153 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12153
1869 hypothetical protein

1869 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1869
20703 hypothetical protein

20703 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20703
23654 (Tp_AP2-EREBP6) regulator [Rayko]

23654 - (Tp_AP2-EREBP6) regulator [Rayko]

GO Terms:

GO:0016491, GO:0003700, GO:0005634, GO:0006355

CD Domains:

Go To Gene Page:

23654
23848 (Tp_HSF_3.5a) HSF_DNA-bind superfamily

23848 - (Tp_HSF_3.5a) HSF_DNA-bind superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

23848
23915 (Tp_Myb2R1) regulator [Rayko]

23915 - (Tp_Myb2R1) regulator [Rayko]

GO Terms:

GO:0003677, GO:0005634

CD Domains:

Go To Gene Page:

23915
24602 hypothetical protein

24602 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24602
24958 hypothetical protein

24958 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24958
2509 hypothetical protein

2509 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2509
2535 hypothetical protein

2535 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2535
25483 hypothetical protein

25483 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25483
25802 hypothetical protein

25802 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25802
261895 GH18_chitinase-like superfamily

261895 - GH18_chitinase-like superfamily

GO Terms:

GO:0008152, GO:0016787, GO:0003824, GO:0005975, GO:0004568, GO:0008843

CD Domains:

Go To Gene Page:

261895
263201

263201 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

263201
263284 (ZFP10) zinc finger protein similarity, PHD motif, DNA binding, transcription factor

263284 - (ZFP10) zinc finger protein similarity, PHD motif, DNA binding, transcription factor

GO Terms:

GO:0003677, GO:0006355

CD Domains:

Go To Gene Page:

263284
263482 rad2

263482 - rad2

GO Terms:

GO:0003677, GO:0004518, GO:0006281, GO:0003923, GO:0016787, GO:0051336

CD Domains:

Go To Gene Page:

263482
263734 LRR_RI superfamily

263734 - LRR_RI superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

263734
264838 (Tp_HSF_2.5e) regulator [Rayko]

264838 - (Tp_HSF_2.5e) regulator [Rayko]

GO Terms:

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

CD Domains:

Go To Gene Page:

264838
2657 Abhydrolase_6

2657 - Abhydrolase_6

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

2657
269452 hypothetical protein

269452 - hypothetical protein

GO Terms:

GO:0005524, GO:0015986, GO:0016469, GO:0046933, GO:0046961

CD Domains:

Go To Gene Page:

269452
3477 hypothetical protein

3477 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3477
36631 UDPGlcNAc_PPase

36631 - UDPGlcNAc_PPase

GO Terms:

GO:0008152, GO:0016779, GO:0003977

CD Domains:

Go To Gene Page:

36631
4362 hypothetical protein

4362 - hypothetical protein

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

4362
5511 hypothetical protein

5511 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5511
5870 hypothetical protein

5870 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5870
7245 hypothetical protein

7245 - hypothetical protein

GO Terms:

GO:0005515

CD Domains:

Go To Gene Page:

7245
7301 hypothetical protein

7301 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7301
7359 (Tp_AP2-EREBP8) regulator [Rayko]

7359 - (Tp_AP2-EREBP8) regulator [Rayko]

GO Terms:

GO:0016491, GO:0003700, GO:0005634, GO:0006355

CD Domains:

Go To Gene Page:

7359
7394 (Tp_HSF_2.5i) HSF_DNA-bind superfamily

7394 - (Tp_HSF_2.5i) HSF_DNA-bind superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

7394
8054 hypothetical protein

8054 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8054
8174 hypothetical protein

8174 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8174
8420 UbiH

8420 - UbiH

GO Terms:

GO:0004497, GO:0006725, GO:0006118, GO:0008152, GO:0016491, GO:0004502

CD Domains:

Go To Gene Page:

8420
8799 hypothetical protein

8799 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8799
ThpsCp008 (rbcS) ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit

ThpsCp008 - (rbcS) ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp008
ThpsCt004 (trnR(ucu))

ThpsCt004 - (trnR(ucu))

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCt004
ThpsCt008 (trnI(cau))

ThpsCt008 - (trnI(cau))

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCt008
ThpsCt024 (trnR(acg))

ThpsCt024 - (trnR(acg))

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCt024
ThpsCt026 (trnC(gca))

ThpsCt026 - (trnC(gca))

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCt026
GO ID Go Term p-value q-value Cluster
GO:0006355 regulation of transcription, DNA-dependent 0.000289519 0.790097 Thaps_bicluster_0009
GO:0051336 regulation of hydrolase activity 0.0229404 1 Thaps_bicluster_0009
GO:0006725 aromatic compound metabolism 0.0704475 1 Thaps_bicluster_0009
GO:0015986 ATP synthesis coupled proton transport 0.14198 1 Thaps_bicluster_0009
GO:0006281 DNA repair 0.14198 1 Thaps_bicluster_0009
GO:0008152 metabolism 0.146257 1 Thaps_bicluster_0009
GO:0005975 carbohydrate metabolism 0.221528 1 Thaps_bicluster_0009
GO:0006118 electron transport 0.596044 1 Thaps_bicluster_0009
GO:0006508 proteolysis and peptidolysis 0.626101 1 Thaps_bicluster_0009
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