Thaps_bicluster_0112 Residual: 0.40
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_0112 0.40 Thalassiosira pseudonana
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Displaying 1 - 43 of 43
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10400 hypothetical protein

10400 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10400
11453 SRPBCC superfamily

11453 - SRPBCC superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

11453
11761 (ALDO4) PRK05377

11761 - (ALDO4) PRK05377

GO Terms:

GO:0004332, GO:0006096

CD Domains:

Go To Gene Page:

11761
11796 hypothetical protein

11796 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11796
11906 hypothetical protein

11906 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11906
12729 PLN02205

12729 - PLN02205

GO Terms:

GO:0003825, GO:0005992, GO:0004805, GO:0003824, GO:0008152

CD Domains:

Go To Gene Page:

12729
1681 Telomere_reg-2 superfamily

1681 - Telomere_reg-2 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

1681
1949 hypothetical protein

1949 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1949
2063 hypothetical protein

2063 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2063
21108 PKc_like superfamily

21108 - PKc_like superfamily

GO Terms:

GO:0004672, GO:0005524, GO:0006468, GO:0004713, GO:0004674, GO:0005952, GO:0008603

CD Domains:

Go To Gene Page:

21108
23411 (Tp_HSF_2.7g) regulator [Rayko]

23411 - (Tp_HSF_2.7g) regulator [Rayko]

GO Terms:

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

CD Domains:

Go To Gene Page:

23411
23782 hypothetical protein

23782 - hypothetical protein

GO Terms:

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

CD Domains:

Go To Gene Page:

23782
23984 Patatin_and_cPLA2 superfamily

23984 - Patatin_and_cPLA2 superfamily

GO Terms:

GO:0003824, GO:0045735

CD Domains:

Go To Gene Page:

23984
24113 PRK02237

24113 - PRK02237

GO Terms:

GO:0016020

CD Domains:

Go To Gene Page:

24113
24211 DCR_FMN

24211 - DCR_FMN

GO Terms:

GO:0006118, GO:0016491, GO:0015036, GO:0008670

CD Domains:

Go To Gene Page:

24211
24214 hypothetical protein

24214 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24214
25132 (GYK2) PLN02295

25132 - (GYK2) PLN02295

GO Terms:

GO:0005975, GO:0004370, GO:0006072

CD Domains:

Go To Gene Page:

25132
25695 hypothetical protein

25695 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25695
261726 hypothetical protein

261726 - hypothetical protein

GO Terms:

GO:0016787

CD Domains:

Go To Gene Page:

261726
263475 hypothetical protein

263475 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

263475
264337 hypothetical protein

264337 - hypothetical protein

GO Terms:

GO:0004295, GO:0006508

CD Domains:

Go To Gene Page:

264337
269655 PRK09330

269655 - PRK09330

GO Terms:

GO:0005525, GO:0005737, GO:0005198, GO:0005874, GO:0007018, GO:0003924, GO:0043234, GO:0051258

CD Domains:

Go To Gene Page:

269655
270212 sep-like protein

270212 - sep-like protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270212
27564 PLN02344

27564 - PLN02344

GO Terms:

GO:0004106, GO:0009073

CD Domains:

Go To Gene Page:

27564
31011 Mito_carr

31011 - Mito_carr

GO Terms:

GO:0005488, GO:0006810, GO:0016020

CD Domains:

Go To Gene Page:

31011
31732 ANK

31732 - ANK

GO Terms:

NA

CD Domains:

Go To Gene Page:

31732
33021 FBPase

33021 - FBPase

GO Terms:

GO:0005975, GO:0042578, GO:0042132

CD Domains:

Go To Gene Page:

33021
33193 PAS_9

33193 - PAS_9

GO Terms:

GO:0004871, GO:0007165

CD Domains:

Go To Gene Page:

33193
35356 ANK

35356 - ANK

GO Terms:

NA

CD Domains:

Go To Gene Page:

35356
38085 tpt

38085 - tpt

GO Terms:

NA

CD Domains:

Go To Gene Page:

38085
38359 (GDH_1) PRK09414

38359 - (GDH_1) PRK09414

GO Terms:

GO:0006520, GO:0016491, GO:0004354

CD Domains:

Go To Gene Page:

38359
3867 hypothetical protein

3867 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3867
3893 Methyltransf_31

3893 - Methyltransf_31

GO Terms:

GO:0008757, GO:0008168

CD Domains:

Go To Gene Page:

3893
41216 PLN00022

41216 - PLN00022

GO Terms:

GO:0005489, GO:0006118

CD Domains:

Go To Gene Page:

41216
4666 hypothetical protein

4666 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4666
5186 (PCK1) PEPCK_HprK superfamily

5186 - (PCK1) PEPCK_HprK superfamily

GO Terms:

GO:0004612, GO:0005524, GO:0006094, GO:0004611, GO:0005525

CD Domains:

Go To Gene Page:

5186
5533 Chloroa_b-bind

5533 - Chloroa_b-bind

GO Terms:

GO:0009765, GO:0016020

CD Domains:

Go To Gene Page:

5533
5747 hypothetical protein

5747 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5747
6332 hypothetical protein

6332 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6332
7542 RNase_HII_bacteria_HII_like

7542 - RNase_HII_bacteria_HII_like

GO Terms:

GO:0003723, GO:0004523, GO:0004524

CD Domains:

Go To Gene Page:

7542
9393 hypothetical protein

9393 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9393
9566 hypothetical protein

9566 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9566
ThpsCp032 (rpoC2) RNA polymerase beta'' subunit

ThpsCp032 - (rpoC2) RNA polymerase beta'' subunit

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp032
GO ID Go Term p-value q-value Cluster
GO:0005992 trehalose biosynthesis 0.0123557 1 Thaps_bicluster_0112
GO:0006072 glycerol-3-phosphate metabolism 0.0164419 1 Thaps_bicluster_0112
GO:0009073 aromatic amino acid family biosynthesis 0.0286045 1 Thaps_bicluster_0112
GO:0051258 protein polymerization 0.0326269 1 Thaps_bicluster_0112
GO:0006094 gluconeogenesis 0.0366334 1 Thaps_bicluster_0112
GO:0005975 carbohydrate metabolism 0.0376415 1 Thaps_bicluster_0112
GO:0006520 amino acid metabolism 0.0834984 1 Thaps_bicluster_0112
GO:0006096 glycolysis 0.142624 1 Thaps_bicluster_0112
GO:0007165 signal transduction 0.153299 1 Thaps_bicluster_0112
GO:0009765 photosynthesis light harvesting 0.153299 1 Thaps_bicluster_0112
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