Thaps_bicluster_0170 Residual: 0.34
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_0170 0.34 Thalassiosira pseudonana
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Displaying 1 - 26 of 26
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10937 hypothetical protein

10937 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10937
11360 hypothetical protein

11360 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11360
11984 hypothetical protein

11984 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11984
20970 SpoVK

20970 - SpoVK

GO Terms:

GO:0000166, GO:0017111, GO:0005524

CD Domains:

Go To Gene Page:

20970
21085 hypothetical protein

21085 - hypothetical protein

GO Terms:

GO:0003899, GO:0003900, GO:0003901, GO:0003902

CD Domains:

Go To Gene Page:

21085
21344 TPP_enzyme_PYR superfamily

21344 - TPP_enzyme_PYR superfamily

GO Terms:

GO:0008152, GO:0016624

CD Domains:

Go To Gene Page:

21344
21515 hypothetical protein

21515 - hypothetical protein

GO Terms:

GO:0008152, GO:0016855

CD Domains:

Go To Gene Page:

21515
21558 hypothetical protein

21558 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21558
21656 hypothetical protein

21656 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21656
23511 hypothetical protein

23511 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23511
23576 HA

23576 - HA

GO Terms:

NA

CD Domains:

Go To Gene Page:

23576
23671 hypothetical protein

23671 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23671
24428 hypothetical protein

24428 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24428
24900 hypothetical protein

24900 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24900
25637 hypothetical protein

25637 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25637
25783 hypothetical protein

25783 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25783
263048 hypothetical protein

263048 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

263048
269115 hypothetical protein

269115 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

269115
31001 Y_phosphoryl

31001 - Y_phosphoryl

GO Terms:

GO:0006206, GO:0008152, GO:0016757, GO:0009032

CD Domains:

Go To Gene Page:

31001
31984 (SAT2) cysE

31984 - (SAT2) cysE

GO Terms:

GO:0009001

CD Domains:

Go To Gene Page:

31984
37231 HECTc

37231 - HECTc

GO Terms:

GO:0004842, GO:0005622, GO:0006464, GO:0006512

CD Domains:

Go To Gene Page:

37231
37803 DUF208 superfamily

37803 - DUF208 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

37803
39225 Snf7

39225 - Snf7

GO Terms:

GO:0005554

CD Domains:

Go To Gene Page:

39225
7550 hypothetical protein

7550 - hypothetical protein

GO Terms:

GO:0008270, GO:0016787

CD Domains:

Go To Gene Page:

7550
7689 hypothetical protein

7689 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7689
GO ID Go Term p-value q-value Cluster
GO:0006206 pyrimidine base metabolism 0.00144718 1 Thaps_bicluster_0170
GO:0008152 metabolism 0.0160137 1 Thaps_bicluster_0170
GO:0006512 ubiquitin cycle 0.0509804 1 Thaps_bicluster_0170
GO:0006464 protein modification 0.0823711 1 Thaps_bicluster_0170
GO:0006468 protein amino acid phosphorylation 0.270534 1 Thaps_bicluster_0170
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