Thaps_bicluster_0173 Residual: 0.35
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_0173 0.35 Thalassiosira pseudonana
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Displaying 1 - 22 of 22
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10741 hypothetical protein

10741 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10741
11185 hypothetical protein

11185 - hypothetical protein

GO Terms:

GO:0004721, GO:0006470

CD Domains:

Go To Gene Page:

11185
1727 Glyco_trans_1_4

1727 - Glyco_trans_1_4

GO Terms:

NA

CD Domains:

Go To Gene Page:

1727
18462 EMP24_GP25L

18462 - EMP24_GP25L

GO Terms:

NA

CD Domains:

Go To Gene Page:

18462
19311 Lumazine_synthase-I

19311 - Lumazine_synthase-I

GO Terms:

GO:0004746, GO:0009231, GO:0009349

CD Domains:

Go To Gene Page:

19311
21689 Pro_isomerase

21689 - Pro_isomerase

GO Terms:

GO:0006457

CD Domains:

Go To Gene Page:

21689
262977 NA

262977 - NA

GO Terms:

GO:0005489, GO:0005506, GO:0006118

CD Domains:

Go To Gene Page:

262977
264496 Aldo_ket_red

264496 - Aldo_ket_red

GO Terms:

GO:0016491, GO:0047641

CD Domains:

Go To Gene Page:

264496
264862 ANK

264862 - ANK

GO Terms:

GO:0000062

CD Domains:

Go To Gene Page:

264862
2946 UMP_CMP_kin_fam

2946 - UMP_CMP_kin_fam

GO Terms:

GO:0005524, GO:0006139, GO:0019201, GO:0016776, GO:0004127

CD Domains:

Go To Gene Page:

2946
31014 AP-4_Mu4_Cterm

31014 - AP-4_Mu4_Cterm

GO Terms:

GO:0006886, GO:0030125

CD Domains:

Go To Gene Page:

31014
32295 COG2042

32295 - COG2042

GO Terms:

NA

CD Domains:

Go To Gene Page:

32295
3413 hypothetical protein

3413 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3413
37911 FkpA

37911 - FkpA

GO Terms:

GO:0006457, GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

37911
38189 COG3349

38189 - COG3349

GO Terms:

NA

CD Domains:

Go To Gene Page:

38189
39497 Sar1

39497 - Sar1

GO Terms:

GO:0005525, GO:0007264, GO:0006886

CD Domains:

Go To Gene Page:

39497
41548 (GALE3) PLN02695

41548 - (GALE3) PLN02695

GO Terms:

GO:0003824, GO:0009225, GO:0048040

CD Domains:

Go To Gene Page:

41548
4409 hypothetical protein

4409 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4409
4804 Aldo_ket_red

4804 - Aldo_ket_red

GO Terms:

GO:0016491

CD Domains:

Go To Gene Page:

4804
6017 hypothetical protein

6017 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6017
7406 DUF1749 superfamily

7406 - DUF1749 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

7406
9967 hypothetical protein

9967 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9967
GO ID Go Term p-value q-value Cluster
GO:0006886 intracellular protein transport 0.00519858 1 Thaps_bicluster_0173
GO:0009231 riboflavin biosynthesis 0.0123468 1 Thaps_bicluster_0173
GO:0009225 nucleotide-sugar metabolism 0.0184686 1 Thaps_bicluster_0173
GO:0006457 protein folding 0.0280077 1 Thaps_bicluster_0173
GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolism 0.0306099 1 Thaps_bicluster_0173
GO:0006470 protein amino acid dephosphorylation 0.0525183 1 Thaps_bicluster_0173
GO:0007264 small GTPase mediated signal transduction 0.0681707 1 Thaps_bicluster_0173
GO:0006118 electron transport 0.432304 1 Thaps_bicluster_0173
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