Thaps_bicluster_0180 Residual: 0.31
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_0180 0.31 Thalassiosira pseudonana
Displaying 1 - 22 of 22
10064 DUF4476

10064 - DUF4476

GO Terms:

NA

CD Domains:

Go To Gene Page:

10064
10474 hypothetical protein

10474 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10474
18841 RRM_RBM8

18841 - RRM_RBM8

GO Terms:

GO:0001584, GO:0007186, GO:0016021, GO:0003676, GO:0003723, GO:0005634, GO:0005737, GO:0006396, GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

18841
21690 hypothetical protein

21690 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21690
21722 Aldo_ket_red

21722 - Aldo_ket_red

GO Terms:

GO:0016491, GO:0000252, GO:0000253, GO:0004448, GO:0004495, GO:0008875, GO:0016229, GO:0016616, GO:0018451, GO:0018452, GO:0018453, GO:0048258

CD Domains:

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21722
23418 hypothetical protein

23418 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23418
23779 hypothetical protein

23779 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23779
23827 N_Asn_amidohyd superfamily

23827 - N_Asn_amidohyd superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

23827
23830 (GCD1) GCD

23830 - (GCD1) GCD

GO Terms:

GO:0003995, GO:0006118, GO:0016491, GO:0004361

CD Domains:

Go To Gene Page:

23830
25506 hypothetical protein

25506 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25506
25572 COG1042

25572 - COG1042

GO Terms:

GO:0008080

CD Domains:

Go To Gene Page:

25572
25860 hypothetical protein

25860 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25860
263836 Ggt

263836 - Ggt

GO Terms:

GO:0003840

CD Domains:

Go To Gene Page:

263836
269573 Peptidase_C1A

269573 - Peptidase_C1A

GO Terms:

GO:0004197, GO:0006508, GO:0008234, GO:0005509, GO:0016946

CD Domains:

Go To Gene Page:

269573
29322 AAT_I superfamily

29322 - AAT_I superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

29322
31317 (UGDH2) Ugd

31317 - (UGDH2) Ugd

GO Terms:

GO:0006118, GO:0016491, GO:0015036, GO:0003979

CD Domains:

Go To Gene Page:

31317
34514 PLN02539

34514 - PLN02539

GO Terms:

GO:0004345, GO:0006006

CD Domains:

Go To Gene Page:

34514
36297 pepsin_retropepsin_like superfamily

36297 - pepsin_retropepsin_like superfamily

GO Terms:

GO:0004194, GO:0006508, GO:0004190, GO:0004196

CD Domains:

Go To Gene Page:

36297
41655 Chloroa_b-bind

41655 - Chloroa_b-bind

GO Terms:

GO:0009765, GO:0016020

CD Domains:

Go To Gene Page:

41655
5600 Thioredoxin_like superfamily

5600 - Thioredoxin_like superfamily

GO Terms:

GO:0005489, GO:0006118

CD Domains:

Go To Gene Page:

5600
7469 hypothetical protein

7469 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7469
8880 hypothetical protein

8880 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8880
GO ID Go Term p-value q-value Cluster
GO:0006118 electron transport 0.0107831 1 Thaps_bicluster_0180
GO:0006006 glucose metabolism 0.0184686 1 Thaps_bicluster_0180
GO:0007186 G-protein coupled receptor protein signaling pathway 0.0384333 1 Thaps_bicluster_0180
GO:0009765 photosynthesis light harvesting 0.072069 1 Thaps_bicluster_0180
GO:0006508 proteolysis and peptidolysis 0.0964036 1 Thaps_bicluster_0180
GO:0006396 RNA processing 0.102965 1 Thaps_bicluster_0180
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