Thaps_bicluster_0148 Residual: 0.34
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_0148 0.34 Thalassiosira pseudonana
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Displaying 1 - 20 of 20
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12089 DUF1995 superfamily

12089 - DUF1995 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

12089
16344 hypothetical protein

16344 - hypothetical protein

GO Terms:

GO:0000139, GO:0005351, GO:0008643, GO:0016021

CD Domains:

Go To Gene Page:

16344
1927 hypothetical protein

1927 - hypothetical protein

GO Terms:

GO:0004568, GO:0008843

CD Domains:

Go To Gene Page:

1927
21059 hypothetical protein

21059 - hypothetical protein

GO Terms:

GO:0003677, GO:0006306, GO:0008170

CD Domains:

Go To Gene Page:

21059
21692 Pyrid_oxidase_2

21692 - Pyrid_oxidase_2

GO Terms:

NA

CD Domains:

Go To Gene Page:

21692
262307 BCCT

262307 - BCCT

GO Terms:

GO:0005215, GO:0006810, GO:0016020

CD Domains:

Go To Gene Page:

262307
262964 HMPP_kinase

262964 - HMPP_kinase

GO Terms:

GO:0008972, GO:0009228

CD Domains:

Go To Gene Page:

262964
268908 Trans_IPPS_HH

268908 - Trans_IPPS_HH

GO Terms:

GO:0009058, GO:0016740, GO:0004659, GO:0004660, GO:0004661, GO:0004662, GO:0004663, GO:0008318, GO:0008412, GO:0008495, GO:0046428

CD Domains:

Go To Gene Page:

268908
270301 hypothetical protein

270301 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270301
270370 hypothetical protein

270370 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270370
270378 hypothetical protein

270378 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270378
30747 CTP_transf_1

30747 - CTP_transf_1

GO Terms:

GO:0004605, GO:0008654, GO:0016020

CD Domains:

Go To Gene Page:

30747
3453 hypothetical protein

3453 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3453
35532 (GALE1) PLN02240

35532 - (GALE1) PLN02240

GO Terms:

GO:0003824, GO:0009225, GO:0003978, GO:0006012, GO:0005975, GO:0016857

CD Domains:

Go To Gene Page:

35532
36310 Peptidase_M48

36310 - Peptidase_M48

GO Terms:

GO:0004222, GO:0006508, GO:0016020

CD Domains:

Go To Gene Page:

36310
4843 (FCP2) hypothetical protein

4843 - (FCP2) hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4843
4917 hypothetical protein

4917 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4917
5322 hypothetical protein

5322 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5322
6572 hypothetical protein

6572 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6572
7270 hypothetical protein

7270 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7270
GO ID Go Term p-value q-value Cluster
GO:0009228 thiamin biosynthesis 0.00824653 1 Thaps_bicluster_0148
GO:0006012 galactose metabolism 0.0123468 1 Thaps_bicluster_0148
GO:0009225 nucleotide-sugar metabolism 0.0184686 1 Thaps_bicluster_0148
GO:0008654 phospholipid biosynthesis 0.0285957 1 Thaps_bicluster_0148
GO:0008643 carbohydrate transport 0.0285957 1 Thaps_bicluster_0148
GO:0006306 DNA methylation 0.0584155 1 Thaps_bicluster_0148
GO:0009058 biosynthesis 0.108157 1 Thaps_bicluster_0148
GO:0005975 carbohydrate metabolism 0.144797 1 Thaps_bicluster_0148
GO:0006810 transport 0.321719 1 Thaps_bicluster_0148
GO:0006508 proteolysis and peptidolysis 0.459068 1 Thaps_bicluster_0148
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