Thaps_bicluster_0213 Residual: 0.25
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_0213 0.25 Thalassiosira pseudonana
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Displaying 1 - 18 of 18
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11354 hypothetical protein

11354 - hypothetical protein

GO Terms:

GO:0005622, GO:0000151, GO:0004842, GO:0008270, GO:0016567, GO:0003700, GO:0006355, GO:0004308

CD Domains:

Go To Gene Page:

11354
12044 hypothetical protein

12044 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12044
15791 STKc_MAPKKK

15791 - STKc_MAPKKK

GO Terms:

GO:0004672, GO:0005524, GO:0006468, GO:0004713, GO:0004674

CD Domains:

Go To Gene Page:

15791
1908 hypothetical protein

1908 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1908
20986 WcaG

20986 - WcaG

GO Terms:

GO:0003677, GO:0003711, GO:0006355

CD Domains:

Go To Gene Page:

20986
2132 hypothetical protein

2132 - hypothetical protein

GO Terms:

GO:0000166, GO:0017111

CD Domains:

Go To Gene Page:

2132
23028 KISc_KIF2_like

23028 - KISc_KIF2_like

GO Terms:

GO:0003777, GO:0005524, GO:0005875, GO:0007018, GO:0008574

CD Domains:

Go To Gene Page:

23028
23522 DUF1032 superfamily

23522 - DUF1032 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

23522
24403 hypothetical protein

24403 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24403
2442 hypothetical protein

2442 - hypothetical protein

GO Terms:

GO:0008146

CD Domains:

Go To Gene Page:

2442
25304 hypothetical protein

25304 - hypothetical protein

GO Terms:

GO:0004672, GO:0005524, GO:0006468

CD Domains:

Go To Gene Page:

25304
268221 (Tp_Myb1R10) MYB DNA binding protein/ transcription factor-like protein

268221 - (Tp_Myb1R10) MYB DNA binding protein/ transcription factor-like protein

GO Terms:

GO:0003677, GO:0005634

CD Domains:

Go To Gene Page:

268221
2910 Motor_domain superfamily

2910 - Motor_domain superfamily

GO Terms:

GO:0003777, GO:0005524, GO:0005875, GO:0007018

CD Domains:

Go To Gene Page:

2910
37398 Motor_domain superfamily

37398 - Motor_domain superfamily

GO Terms:

GO:0003777, GO:0005524, GO:0005875, GO:0007018

CD Domains:

Go To Gene Page:

37398
4742 PIN_SF superfamily

4742 - PIN_SF superfamily

GO Terms:

GO:0003677, GO:0004518, GO:0006281

CD Domains:

Go To Gene Page:

4742
5662 hypothetical protein

5662 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5662
7967 2A0106

7967 - 2A0106

GO Terms:

GO:0005524, GO:0016887, GO:0005215, GO:0006810, GO:0016021, GO:0008733

CD Domains:

Go To Gene Page:

7967
GO ID Go Term p-value q-value Cluster
GO:0007018 microtubule-based movement 0.000102782 0.281931 Thaps_bicluster_0213
GO:0006468 protein amino acid phosphorylation 0.0106857 1 Thaps_bicluster_0213
GO:0006281 DNA repair 0.0998737 1 Thaps_bicluster_0213
GO:0006355 regulation of transcription, DNA-dependent 0.151344 1 Thaps_bicluster_0213
GO:0016567 protein ubiquitination 0.165839 1 Thaps_bicluster_0213
GO:0006810 transport 0.347574 1 Thaps_bicluster_0213
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