Thaps_bicluster_0258 Residual: 0.30
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_0258 0.30 Thalassiosira pseudonana
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Displaying 1 - 23 of 23
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10037 hypothetical protein

10037 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10037
10096 hypothetical protein

10096 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10096
11101 TauE

11101 - TauE

GO Terms:

NA

CD Domains:

Go To Gene Page:

11101
16372 Aldo_ket_red

16372 - Aldo_ket_red

GO Terms:

GO:0016491, GO:0047681

CD Domains:

Go To Gene Page:

16372
1768 hypothetical protein

1768 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1768
19837 AdoMet_MTases superfamily

19837 - AdoMet_MTases superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

19837
2010 hypothetical protein

2010 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2010
20661 hypothetical protein

20661 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20661
20666 RabGAP-TBC

20666 - RabGAP-TBC

GO Terms:

NA

CD Domains:

Go To Gene Page:

20666
24303 DUF647 superfamily

24303 - DUF647 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

24303
25878 PRK07206

25878 - PRK07206

GO Terms:

NA

CD Domains:

Go To Gene Page:

25878
261161 AdoMet_MTases superfamily

261161 - AdoMet_MTases superfamily

GO Terms:

GO:0008757, GO:0003824, GO:0004766

CD Domains:

Go To Gene Page:

261161
2837 hypothetical protein

2837 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2837
3487 (Tp_CCCH24) regulator [Rayko]

3487 - (Tp_CCCH24) regulator [Rayko]

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

3487
3601 Ion_trans_2

3601 - Ion_trans_2

GO Terms:

GO:0005267, GO:0006813, GO:0016020, GO:0005249, GO:0008076, GO:0005261, GO:0006812, GO:0005216, GO:0006811

CD Domains:

Go To Gene Page:

3601
4066 hypothetical protein

4066 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4066
4320 hypothetical protein

4320 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4320
5119 MATE_like superfamily

5119 - MATE_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

5119
6232 hypothetical protein

6232 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6232
7796 ANK

7796 - ANK

GO Terms:

NA

CD Domains:

Go To Gene Page:

7796
8439 NADB_Rossmann superfamily

8439 - NADB_Rossmann superfamily

GO Terms:

GO:0003824, GO:0009225, GO:0005975, GO:0016857

CD Domains:

Go To Gene Page:

8439
9329 hypothetical protein

9329 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9329
9471 SEC-C superfamily

9471 - SEC-C superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

9471
GO ID Go Term p-value q-value Cluster
GO:0009225 nucleotide-sugar metabolism 0.00927255 1 Thaps_bicluster_0258
GO:0006811 ion transport 0.0184762 1 Thaps_bicluster_0258
GO:0006813 potassium ion transport 0.0225447 1 Thaps_bicluster_0258
GO:0006812 cation transport 0.0436835 1 Thaps_bicluster_0258
GO:0005975 carbohydrate metabolism 0.0751903 1 Thaps_bicluster_0258
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