Thaps_bicluster_0156 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_0156 0.33 Thalassiosira pseudonana
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Displaying 1 - 27 of 27
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11272 (Lhcr8) fucoxanthin chl a/c light-harvesting protein

11272 - (Lhcr8) fucoxanthin chl a/c light-harvesting protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11272
12097 (Lhcx6) Chloroa_b-bind

12097 - (Lhcx6) Chloroa_b-bind

GO Terms:

GO:0009765, GO:0016020

CD Domains:

Go To Gene Page:

12097
1326 sopT

1326 - sopT

GO Terms:

GO:0000103, GO:0004781, GO:0009336

CD Domains:

Go To Gene Page:

1326
1666 Tic22 superfamily

1666 - Tic22 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

1666
18796 UMP_CMP_kin_fam

18796 - UMP_CMP_kin_fam

GO Terms:

GO:0005524, GO:0006139, GO:0019201, GO:0004127

CD Domains:

Go To Gene Page:

18796
1888 hypothetical protein

1888 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1888
1889 PRK00529

1889 - PRK00529

GO Terms:

GO:0003746, GO:0006414

CD Domains:

Go To Gene Page:

1889
20618 hypothetical protein

20618 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20618
20678 hypothetical protein

20678 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20678
21043 hypothetical protein

21043 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21043
21939 Aldo_ket_red

21939 - Aldo_ket_red

GO Terms:

GO:0016491

CD Domains:

Go To Gene Page:

21939
23228 ilvC

23228 - ilvC

GO Terms:

GO:0004455, GO:0009082

CD Domains:

Go To Gene Page:

23228
23798 Delta12-FADS-like

23798 - Delta12-FADS-like

GO Terms:

GO:0016491, GO:0006636, GO:0016020, GO:0016717, GO:0016215, GO:0018688, GO:0018689, GO:0042389

CD Domains:

Go To Gene Page:

23798
24247 hypothetical protein

24247 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24247
270372 hypothetical protein

270372 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270372
32860 (EAR1) PLN02730

32860 - (EAR1) PLN02730

GO Terms:

GO:0008152, GO:0016491, GO:0004318, GO:0016631

CD Domains:

Go To Gene Page:

32860
33008 PLN02338

33008 - PLN02338

GO Terms:

GO:0003866, GO:0016089

CD Domains:

Go To Gene Page:

33008
3691 hypothetical protein

3691 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3691
3741 (ELO1) ELO

3741 - (ELO1) ELO

GO Terms:

GO:0016021

CD Domains:

Go To Gene Page:

3741
40348 (cdc48) SpoVK
41778 (PURA) AdSS

41778 - (PURA) AdSS

GO Terms:

GO:0004019, GO:0005525, GO:0006164

CD Domains:

Go To Gene Page:

41778
41898 (HSP70_2) HYOU1-like_NBD

41898 - (HSP70_2) HYOU1-like_NBD

GO Terms:

GO:0005524

CD Domains:

Go To Gene Page:

41898
4604 hypothetical protein

4604 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4604
5293 PRK00772

5293 - PRK00772

GO Terms:

GO:0008152, GO:0016491, GO:0003862, GO:0005737, GO:0009098

CD Domains:

Go To Gene Page:

5293
6524 phytoene_desat

6524 - phytoene_desat

GO Terms:

GO:0006118, GO:0004497, GO:0016491, GO:0016937, GO:0017099, GO:0019109

CD Domains:

Go To Gene Page:

6524
6665 hypothetical protein

6665 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6665
9511 adk

9511 - adk

GO Terms:

GO:0005524, GO:0006139, GO:0019201, GO:0016776, GO:0004017

CD Domains:

Go To Gene Page:

9511
GO ID Go Term p-value q-value Cluster
GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolism 0.000686568 1 Thaps_bicluster_0156
GO:0016089 aromatic amino acid family biosynthesis, shikimate pathway 0.00536856 1 Thaps_bicluster_0156
GO:0009082 branched chain family amino acid biosynthesis 0.00536856 1 Thaps_bicluster_0156
GO:0009098 leucine biosynthesis 0.00804286 1 Thaps_bicluster_0156
GO:0000103 sulfate assimilation 0.0107105 1 Thaps_bicluster_0156
GO:0006164 purine nucleotide biosynthesis 0.0107105 1 Thaps_bicluster_0156
GO:0006636 fatty acid desaturation 0.0318146 1 Thaps_bicluster_0156
GO:0006414 translational elongation 0.0318146 1 Thaps_bicluster_0156
GO:0009765 photosynthesis light harvesting 0.10245 1 Thaps_bicluster_0156
GO:0008152 metabolism 0.300056 1 Thaps_bicluster_0156
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