Thaps_bicluster_0187 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_0187 0.36 Thalassiosira pseudonana
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Displaying 1 - 30 of 30
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10191 SUL1

10191 - SUL1

GO Terms:

GO:0005215, GO:0006810

CD Domains:

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10191
10465 hypothetical protein

10465 - hypothetical protein

GO Terms:

NA

CD Domains:

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10465
10626 hypothetical protein

10626 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10626
1081 hypothetical protein

1081 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1081
12570 DEXDc

12570 - DEXDc

GO Terms:

GO:0005524, GO:0008026, GO:0003676, GO:0004386, GO:0004866

CD Domains:

Go To Gene Page:

12570
20907 hypothetical protein

20907 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

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20907
20925 hypothetical protein

20925 - hypothetical protein

GO Terms:

GO:0000074

CD Domains:

Go To Gene Page:

20925
21852 hypothetical protein

21852 - hypothetical protein

GO Terms:

GO:0005622

CD Domains:

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21852
22124 (Tp_HSF_1.2a) HSF_DNA-bind

22124 - (Tp_HSF_1.2a) HSF_DNA-bind

GO Terms:

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

CD Domains:

Go To Gene Page:

22124
22764 hypothetical protein

22764 - hypothetical protein

GO Terms:

GO:0004402

CD Domains:

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22764
23497 hypothetical protein

23497 - hypothetical protein

GO Terms:

NA

CD Domains:

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23497
23754 hypothetical protein

23754 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23754
24827 CHD

24827 - CHD

GO Terms:

GO:0007242, GO:0009190, GO:0016849, GO:0003824, GO:0004016, GO:0008294

CD Domains:

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24827
24955 hypothetical protein

24955 - hypothetical protein

GO Terms:

NA

CD Domains:

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24955
25397 MviM

25397 - MviM

GO Terms:

GO:0006118, GO:0008152, GO:0016491

CD Domains:

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25397
25438 (Tp_fungal_TRF1b) regulator [Rayko]

25438 - (Tp_fungal_TRF1b) regulator [Rayko]

GO Terms:

GO:0003700, GO:0005634, GO:0006355, GO:0008270

CD Domains:

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25438
25873 hypothetical protein

25873 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25873
260818 DUF1126 superfamily

260818 - DUF1126 superfamily

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

260818
261639 (Helicase_1) rad3
262517 Glyco_18

262517 - Glyco_18

GO Terms:

GO:0008152, GO:0016787, GO:0003824, GO:0005975, GO:0004568, GO:0008843

CD Domains:

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262517
35531 SET

35531 - SET

GO Terms:

NA

CD Domains:

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35531
4047 hypothetical protein

4047 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

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4047
4050 hypothetical protein

4050 - hypothetical protein

GO Terms:

GO:0006508, GO:0008237, GO:0008270, GO:0008766, GO:0016881, GO:0018169

CD Domains:

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4050
5829 hypothetical protein

5829 - hypothetical protein

GO Terms:

GO:0004365, GO:0006096, GO:0051287

CD Domains:

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5829
6186 hypothetical protein

6186 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6186
6883 Peptidase_C19 superfamily

6883 - Peptidase_C19 superfamily

GO Terms:

GO:0004197, GO:0004221, GO:0006511

CD Domains:

Go To Gene Page:

6883
8408 hypothetical protein

8408 - hypothetical protein

GO Terms:

GO:0004402

CD Domains:

Go To Gene Page:

8408
9131 SCP superfamily

9131 - SCP superfamily

GO Terms:

GO:0005576

CD Domains:

Go To Gene Page:

9131
9790 hypothetical protein

9790 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9790
991 PROCN superfamily

991 - PROCN superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

991
GO ID Go Term p-value q-value Cluster
GO:0006289 nucleotide-excision repair 0.0154159 1 Thaps_bicluster_0187
GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolism 0.0455847 1 Thaps_bicluster_0187
GO:0009190 cyclic nucleotide biosynthesis 0.066187 1 Thaps_bicluster_0187
GO:0006096 glycolysis 0.108945 1 Thaps_bicluster_0187
GO:0007242 intracellular signaling cascade 0.122787 1 Thaps_bicluster_0187
GO:0006511 ubiquitin-dependent protein catabolism 0.147198 1 Thaps_bicluster_0187
GO:0000074 regulation of cell cycle 0.170973 1 Thaps_bicluster_0187
GO:0005975 carbohydrate metabolism 0.209229 1 Thaps_bicluster_0187
GO:0006355 regulation of transcription, DNA-dependent 0.245811 1 Thaps_bicluster_0187
GO:0008152 metabolism 0.363828 1 Thaps_bicluster_0187
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