Thaps_bicluster_0107 Residual: 0.36
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_0107 0.36 Thalassiosira pseudonana
Displaying 1 - 26 of 26
11338 hypothetical protein

11338 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11338
1481 hypothetical protein

1481 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1481
17910 UBCc

17910 - UBCc

GO Terms:

GO:0004840, GO:0006464, GO:0006512, GO:0004842

CD Domains:

Go To Gene Page:

17910
20951 ARM

20951 - ARM

GO Terms:

NA

CD Domains:

Go To Gene Page:

20951
21415 hypothetical protein

21415 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21415
21581 hypothetical protein

21581 - hypothetical protein

GO Terms:

GO:0003677, GO:0003899, GO:0006350

CD Domains:

Go To Gene Page:

21581
22118 Pkinase

22118 - Pkinase

GO Terms:

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

CD Domains:

Go To Gene Page:

22118
23825 hypothetical protein

23825 - hypothetical protein

GO Terms:

GO:0003779

CD Domains:

Go To Gene Page:

23825
23899 hypothetical protein

23899 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23899
23946 hypothetical protein

23946 - hypothetical protein

GO Terms:

GO:0005515

CD Domains:

Go To Gene Page:

23946
24068 SNARE component

24068 - SNARE component

GO Terms:

GO:0006886, GO:0016021

CD Domains:

Go To Gene Page:

24068
24142 hypothetical protein

24142 - hypothetical protein

GO Terms:

GO:0008766, GO:0016881, GO:0018169

CD Domains:

Go To Gene Page:

24142
24719 hypothetical protein

24719 - hypothetical protein

GO Terms:

GO:0004402

CD Domains:

Go To Gene Page:

24719
25378 hypothetical protein

25378 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25378
25440 Smc

25440 - Smc

GO Terms:

NA

CD Domains:

Go To Gene Page:

25440
263031 (Rad23) rad23

263031 - (Rad23) rad23

GO Terms:

GO:0006464, GO:0005634, GO:0006289

CD Domains:

Go To Gene Page:

263031
264095 (TF2D2) PLN00062

264095 - (TF2D2) PLN00062

GO Terms:

GO:0003677, GO:0003702, GO:0005634, GO:0005669, GO:0006355, GO:0006367

CD Domains:

Go To Gene Page:

264095
34620 PX_SNX1_2_like

34620 - PX_SNX1_2_like

GO Terms:

GO:0007242

CD Domains:

Go To Gene Page:

34620
35907 Prp18

35907 - Prp18

GO Terms:

GO:0005681, GO:0008380

CD Domains:

Go To Gene Page:

35907
36524 Elf1

36524 - Elf1

GO Terms:

NA

CD Domains:

Go To Gene Page:

36524
37430 Sm_D2

37430 - Sm_D2

GO Terms:

GO:0005634, GO:0005732, GO:0006397, GO:0030529

CD Domains:

Go To Gene Page:

37430
6600 Sm_D1

6600 - Sm_D1

GO Terms:

GO:0005634, GO:0005732, GO:0006397, GO:0030529

CD Domains:

Go To Gene Page:

6600
6704 hypothetical protein

6704 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6704
7791 hypothetical protein

7791 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7791
7903 hypothetical protein

7903 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7903
9303 hypothetical protein

9303 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9303
GO ID Go Term p-value q-value Cluster
GO:0006397 mRNA processing 0.0014945 1 Thaps_bicluster_0107
GO:0008380 RNA splicing 0.00536856 1 Thaps_bicluster_0107
GO:0006367 transcription initiation from RNA polymerase II promoter 0.00536856 1 Thaps_bicluster_0107
GO:0006464 protein modification 0.0104659 1 Thaps_bicluster_0107
GO:0006289 nucleotide-excision repair 0.0133715 1 Thaps_bicluster_0107
GO:0006350 transcription 0.0777882 1 Thaps_bicluster_0107
GO:0006512 ubiquitin cycle 0.0926592 1 Thaps_bicluster_0107
GO:0007242 intracellular signaling cascade 0.107309 1 Thaps_bicluster_0107
GO:0006886 intracellular protein transport 0.135954 1 Thaps_bicluster_0107
GO:0006468 protein amino acid phosphorylation 0.443559 1 Thaps_bicluster_0107
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