Thaps_bicluster_0137 Residual: 0.33
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_0137 0.33 Thalassiosira pseudonana
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Displaying 1 - 22 of 22
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20014 TBCA

20014 - TBCA

GO Terms:

GO:0007022, GO:0051082

CD Domains:

Go To Gene Page:

20014
22075 Hydrolase_like superfamily

22075 - Hydrolase_like superfamily

GO Terms:

GO:0016491

CD Domains:

Go To Gene Page:

22075
22464 (FUM1) PLN00133

22464 - (FUM1) PLN00133

GO Terms:

GO:0016829, GO:0004333, GO:0006091

CD Domains:

Go To Gene Page:

22464
22792 Rab1_Ypt1

22792 - Rab1_Ypt1

GO Terms:

GO:0005525, GO:0007264, GO:0006886, GO:0000160, GO:0003677, GO:0006355, GO:0015031

CD Domains:

Go To Gene Page:

22792
2409 MPN_NPL4

2409 - MPN_NPL4

GO Terms:

NA

CD Domains:

Go To Gene Page:

2409
262994 COG0637

262994 - COG0637

GO Terms:

GO:0008152, GO:0016787, GO:0003824, GO:0000121

CD Domains:

Go To Gene Page:

262994
263375 RpoD_Cterm

263375 - RpoD_Cterm

GO Terms:

GO:0003677, GO:0003700, GO:0006352, GO:0006355, GO:0016987

CD Domains:

Go To Gene Page:

263375
264773 ABCG_PDR_domain2

264773 - ABCG_PDR_domain2

GO Terms:

GO:0005524, GO:0016887, GO:0000166, GO:0017111

CD Domains:

Go To Gene Page:

264773
269540 (CHC) Clathrin

269540 - (CHC) Clathrin

GO Terms:

GO:0030125

CD Domains:

Go To Gene Page:

269540
30971 MIR

30971 - MIR

GO Terms:

GO:0016020

CD Domains:

Go To Gene Page:

30971
3500 hypothetical protein

3500 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3500
42475 PLN00128

42475 - PLN00128

GO Terms:

GO:0006118, GO:0015036, GO:0016491, GO:0016627, GO:0006099, GO:0050660, GO:0008177

CD Domains:

Go To Gene Page:

42475
4704 LPLAT_AAK14816-like

4704 - LPLAT_AAK14816-like

GO Terms:

GO:0008152, GO:0008415

CD Domains:

Go To Gene Page:

4704
4783 hypothetical protein

4783 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4783
5586 Prenylcys_lyase superfamily

5586 - Prenylcys_lyase superfamily

GO Terms:

GO:0001735

CD Domains:

Go To Gene Page:

5586
5599 HVSL superfamily

5599 - HVSL superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

5599
5701 hypothetical protein

5701 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5701
6552 hypothetical protein

6552 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6552
8353 hypothetical protein

8353 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8353
889 hypothetical protein

889 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

889
904 hypothetical protein

904 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

904
9848 Thioredoxin_like superfamily

9848 - Thioredoxin_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

9848
GO ID Go Term p-value q-value Cluster
GO:0007022 chaperonin-mediated tubulin folding 0.00289436 1 Thaps_bicluster_0137
GO:0006091 generation of precursor metabolites and energy 0.00289436 1 Thaps_bicluster_0137
GO:0006099 tricarboxylic acid cycle 0.0285957 1 Thaps_bicluster_0137
GO:0006352 transcription initiation 0.0370252 1 Thaps_bicluster_0137
GO:0000160 two-component signal transduction system (phosphorelay) 0.0754724 1 Thaps_bicluster_0137
GO:0007264 small GTPase mediated signal transduction 0.0941568 1 Thaps_bicluster_0137
GO:0007018 microtubule-based movement 0.117664 1 Thaps_bicluster_0137
GO:0015031 protein transport 0.117664 1 Thaps_bicluster_0137
GO:0006886 intracellular protein transport 0.145627 1 Thaps_bicluster_0137
GO:0006355 regulation of transcription, DNA-dependent 0.221736 1 Thaps_bicluster_0137
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