Thaps_bicluster_0158 Residual: 0.37
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_0158 0.37 Thalassiosira pseudonana
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Displaying 1 - 28 of 28
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10814 hypothetical protein

10814 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10814
10816 hypothetical protein

10816 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10816
11038 hypothetical protein

11038 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11038
11039 TLD

11039 - TLD

GO Terms:

NA

CD Domains:

Go To Gene Page:

11039
11057 hypothetical protein

11057 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11057
12149 hypothetical protein

12149 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12149
12960 Vac14_Fig4_bd

12960 - Vac14_Fig4_bd

GO Terms:

NA

CD Domains:

Go To Gene Page:

12960
20644 hypothetical protein

20644 - hypothetical protein

GO Terms:

GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

20644
21861 hypothetical protein

21861 - hypothetical protein

GO Terms:

GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

21861
22070 SRPBCC superfamily

22070 - SRPBCC superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

22070
23881 hypothetical protein

23881 - hypothetical protein

GO Terms:

GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

23881
24101 hypothetical protein

24101 - hypothetical protein

GO Terms:

GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

24101
24235 Peptidase_C19 superfamily

24235 - Peptidase_C19 superfamily

GO Terms:

GO:0004197, GO:0004221, GO:0006511, GO:0006512

CD Domains:

Go To Gene Page:

24235
24870 hypothetical protein

24870 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24870
25181 hypothetical protein

25181 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25181
25429 hypothetical protein

25429 - hypothetical protein

GO Terms:

GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

25429
25882 hypothetical protein

25882 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25882
268835 (ECI1) ECH

268835 - (ECI1) ECH

GO Terms:

GO:0003824, GO:0008152, GO:0004165

CD Domains:

Go To Gene Page:

268835
269233 (Tp_HSF_3.4d) HSF_DNA-bind

269233 - (Tp_HSF_3.4d) HSF_DNA-bind

GO Terms:

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

CD Domains:

Go To Gene Page:

269233
3625 FNR_like superfamily

3625 - FNR_like superfamily

GO Terms:

GO:0005489, GO:0006118, GO:0016491, GO:0010181, GO:0003958

CD Domains:

Go To Gene Page:

3625
38190 VTC1

38190 - VTC1

GO Terms:

NA

CD Domains:

Go To Gene Page:

38190
4157 hypothetical protein

4157 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

4157
6636 Glyco_hydro_18

6636 - Glyco_hydro_18

GO Terms:

GO:0008152, GO:0016787, GO:0005576, GO:0006030, GO:0008061

CD Domains:

Go To Gene Page:

6636
6798 PRK06476

6798 - PRK06476

GO Terms:

GO:0004735, GO:0006561, GO:0004553, GO:0005975

CD Domains:

Go To Gene Page:

6798
8980 hypothetical protein

8980 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8980
9657 hypothetical protein

9657 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9657
9661 hypothetical protein

9661 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9661
9959 hypothetical protein

9959 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9959
GO ID Go Term p-value q-value Cluster
GO:0006561 proline biosynthesis 0.00742418 1 Thaps_bicluster_0158
GO:0006030 chitin metabolism 0.0384333 1 Thaps_bicluster_0158
GO:0006512 ubiquitin cycle 0.065076 1 Thaps_bicluster_0158
GO:0006511 ubiquitin-dependent protein catabolism 0.0910605 1 Thaps_bicluster_0158
GO:0005975 carbohydrate metabolism 0.131302 1 Thaps_bicluster_0158
GO:0008152 metabolism 0.171652 1 Thaps_bicluster_0158
GO:0006118 electron transport 0.399203 1 Thaps_bicluster_0158
GO:0006355 regulation of transcription, DNA-dependent 0.446038 1 Thaps_bicluster_0158
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