Thaps_bicluster_0124 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_0124 0.37 Thalassiosira pseudonana
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Displaying 1 - 30 of 30
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20596 hypothetical protein

20596 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20596
20783 Nterm_to_SelD

20783 - Nterm_to_SelD

GO Terms:

GO:0006118, GO:0015036

CD Domains:

Go To Gene Page:

20783
21548 hypothetical protein

21548 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21548
21824 hypothetical protein

21824 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21824
23686 Sun

23686 - Sun

GO Terms:

NA

CD Domains:

Go To Gene Page:

23686
23777 BCAS2 superfamily

23777 - BCAS2 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

23777
23803 (Tp_HSF_3.4b) HSF_DNA-bind superfamily

23803 - (Tp_HSF_3.4b) HSF_DNA-bind superfamily

GO Terms:

GO:0003700, GO:0005634, GO:0006355, GO:0003677, GO:0008766, GO:0016881, GO:0018169

CD Domains:

Go To Gene Page:

23803
24293 hypothetical protein

24293 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24293
24595 hypothetical protein

24595 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24595
24982 FG-GAP_2

24982 - FG-GAP_2

GO Terms:

GO:0007155, GO:0007160, GO:0008305

CD Domains:

Go To Gene Page:

24982
25096 RING

25096 - RING

GO Terms:

GO:0004182, GO:0006508, GO:0000151, GO:0004842, GO:0008270, GO:0016567

CD Domains:

Go To Gene Page:

25096
25531 hypothetical protein

25531 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25531
25553 hypothetical protein

25553 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

25553
25679 hypothetical protein

25679 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25679
25680 hypothetical protein

25680 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

25680
260939 DSPc

260939 - DSPc

GO Terms:

GO:0006470, GO:0008138, GO:0004721

CD Domains:

Go To Gene Page:

260939
262855 TLDc

262855 - TLDc

GO Terms:

NA

CD Domains:

Go To Gene Page:

262855
263374 NagC

263374 - NagC

GO Terms:

GO:0008865

CD Domains:

Go To Gene Page:

263374
264271 PKc_like superfamily

264271 - PKc_like superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

264271
3197 (Tp_HSF_2.3a) HSF_DNA-bind

3197 - (Tp_HSF_2.3a) HSF_DNA-bind

GO Terms:

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

CD Domains:

Go To Gene Page:

3197
32933 hypothetical protein

32933 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

32933
35855 PH-like_bacteria

35855 - PH-like_bacteria

GO Terms:

NA

CD Domains:

Go To Gene Page:

35855
35916 Nudix_Hydrolase superfamily

35916 - Nudix_Hydrolase superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

35916
3637 hypothetical protein

3637 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3637
5909 (Tp_HSF_2.3c) HSF_DNA-bind superfamily

5909 - (Tp_HSF_2.3c) HSF_DNA-bind superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

5909
6075 hypothetical protein

6075 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6075
7379 (Tp_HSF_2.6d) HSF_DNA-bind superfamily

7379 - (Tp_HSF_2.6d) HSF_DNA-bind superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

7379
7508 Hr-like

7508 - Hr-like

GO Terms:

NA

CD Domains:

Go To Gene Page:

7508
7727 hypothetical protein

7727 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7727
8022 hypothetical protein

8022 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8022
GO ID Go Term p-value q-value Cluster
GO:0006355 regulation of transcription, DNA-dependent 0.00367577 1 Thaps_bicluster_0124
GO:0007160 cell-matrix adhesion 0.0402221 1 Thaps_bicluster_0124
GO:0006470 protein amino acid dephosphorylation 0.0576218 1 Thaps_bicluster_0124
GO:0007155 cell adhesion 0.0662137 1 Thaps_bicluster_0124
GO:0016567 protein ubiquitination 0.165839 1 Thaps_bicluster_0124
GO:0006468 protein amino acid phosphorylation 0.39098 1 Thaps_bicluster_0124
GO:0006118 electron transport 0.463588 1 Thaps_bicluster_0124
GO:0006508 proteolysis and peptidolysis 0.491343 1 Thaps_bicluster_0124
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