Thaps_bicluster_0102 Residual: 0.20
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_0102 0.20 Thalassiosira pseudonana
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Displaying 1 - 15 of 15
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1989 FKBP_C

1989 - FKBP_C

GO Terms:

GO:0006457

CD Domains:

Go To Gene Page:

1989
22194 DUF1995 superfamily

22194 - DUF1995 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

22194
2465 hypothetical protein

2465 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2465
264901 (Ppx1) PLN02576

264901 - (Ppx1) PLN02576

GO Terms:

GO:0006118, GO:0016491, GO:0004729, GO:0006779

CD Domains:

Go To Gene Page:

264901
2846 FDH_GDH_like superfamily

2846 - FDH_GDH_like superfamily

GO Terms:

GO:0006564, GO:0016616, GO:0004617

CD Domains:

Go To Gene Page:

2846
3327 hypothetical protein

3327 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3327
33566 (TPP1) sigpep_I_bact

33566 - (TPP1) sigpep_I_bact

GO Terms:

GO:0006508, GO:0008236, GO:0016020, GO:0009004

CD Domains:

Go To Gene Page:

33566
3506 DUF1995 superfamily

3506 - DUF1995 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

3506
4531 PKc_like superfamily

4531 - PKc_like superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

4531
4718 SDR_a5

4718 - SDR_a5

GO Terms:

NA

CD Domains:

Go To Gene Page:

4718
5077 PLN00015

5077 - PLN00015

GO Terms:

GO:0008152, GO:0016491, GO:0016630

CD Domains:

Go To Gene Page:

5077
5632 hypothetical protein

5632 - hypothetical protein

GO Terms:

GO:0008168

CD Domains:

Go To Gene Page:

5632
6139 Chloroa_b-bind superfamily

6139 - Chloroa_b-bind superfamily

GO Terms:

GO:0009765, GO:0016020

CD Domains:

Go To Gene Page:

6139
7442 hypothetical protein

7442 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7442
8063 SDR_c

8063 - SDR_c

GO Terms:

GO:0008152, GO:0016491, GO:0004316

CD Domains:

Go To Gene Page:

8063
GO ID Go Term p-value q-value Cluster
GO:0006118 electron transport 0.399203 1 Thaps_bicluster_0102
GO:0006564 L-serine biosynthesis 0.0166355 1 Thaps_bicluster_0102
GO:0008152 metabolism 0.171652 1 Thaps_bicluster_0102
GO:0009765 photosynthesis light harvesting 0.072069 1 Thaps_bicluster_0102
GO:0006779 porphyrin biosynthesis 0.0202987 1 Thaps_bicluster_0102
GO:0006468 protein amino acid phosphorylation 0.333459 1 Thaps_bicluster_0102
GO:0006457 protein folding 0.217609 1 Thaps_bicluster_0102
GO:0006508 proteolysis and peptidolysis 0.424754 1 Thaps_bicluster_0102
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