Thaps_bicluster_0154 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_0154 0.36 Thalassiosira pseudonana
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Displaying 1 - 30 of 30
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11466 hypothetical protein

11466 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11466
13089 Uup

13089 - Uup

GO Terms:

GO:0005524, GO:0016887, GO:0000166, GO:0017111

CD Domains:

Go To Gene Page:

13089
21390 PS_II_psbQ_bact superfamily

21390 - PS_II_psbQ_bact superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

21390
22042 DUF676

22042 - DUF676

GO Terms:

NA

CD Domains:

Go To Gene Page:

22042
22807 Methyltransf_4 superfamily

22807 - Methyltransf_4 superfamily

GO Terms:

GO:0008757

CD Domains:

Go To Gene Page:

22807
23215 Ubox

23215 - Ubox

GO Terms:

GO:0006457, GO:0031072, GO:0051082, GO:0000151, GO:0004842, GO:0016567

CD Domains:

Go To Gene Page:

23215
23368 hypothetical protein

23368 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23368
23446 hypothetical protein

23446 - hypothetical protein

GO Terms:

GO:0003677, GO:0006355

CD Domains:

Go To Gene Page:

23446
23662 Tryp_SPc

23662 - Tryp_SPc

GO Terms:

GO:0004295, GO:0006508, GO:0004263, GO:0004252, GO:0004289, GO:0008132, GO:0008243, GO:0008991, GO:0016808

CD Domains:

Go To Gene Page:

23662
23720 hypothetical protein

23720 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23720
24198 hypothetical protein

24198 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24198
24537 hypothetical protein

24537 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24537
24677 hypothetical protein

24677 - hypothetical protein

GO Terms:

GO:0003684, GO:0005524, GO:0006298

CD Domains:

Go To Gene Page:

24677
25069 hypothetical protein

25069 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25069
25091 hypothetical protein

25091 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25091
25092 hypothetical protein

25092 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25092
25107 U-box superfamily

25107 - U-box superfamily

GO Terms:

GO:0000151, GO:0004842, GO:0016567

CD Domains:

Go To Gene Page:

25107
25206 hypothetical protein

25206 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25206
25207 hypothetical protein

25207 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25207
263451 Tryp_SPc

263451 - Tryp_SPc

GO Terms:

GO:0004295, GO:0006508, GO:0004263

CD Domains:

Go To Gene Page:

263451
263452 Tryp_SPc

263452 - Tryp_SPc

GO Terms:

GO:0004295, GO:0006508, GO:0004263

CD Domains:

Go To Gene Page:

263452
264805 hypothetical protein

264805 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

264805
268204 hypothetical protein

268204 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

268204
32738 S_TKc

32738 - S_TKc

GO Terms:

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

CD Domains:

Go To Gene Page:

32738
35259 hypothetical protein

35259 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

35259
36568 COG2119

36568 - COG2119

GO Terms:

GO:0005554, GO:0016020

CD Domains:

Go To Gene Page:

36568
39824 (HSP104) chaperone_ClpB

39824 - (HSP104) chaperone_ClpB

GO Terms:

GO:0005524, GO:0000166, GO:0017111, GO:0005515, GO:0019538

CD Domains:

Go To Gene Page:

39824
42804 Tryp_SPc

42804 - Tryp_SPc

GO Terms:

GO:0004295, GO:0006508, GO:0004263, GO:0004252, GO:0004289, GO:0008132, GO:0008243, GO:0008991, GO:0016808

CD Domains:

Go To Gene Page:

42804
5770 hypothetical protein

5770 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5770
GO ID Go Term p-value q-value Cluster
GO:0006508 proteolysis and peptidolysis 0.00416092 1 Thaps_bicluster_0154
GO:0016567 protein ubiquitination 0.015635 1 Thaps_bicluster_0154
GO:0006298 mismatch repair 0.0390234 1 Thaps_bicluster_0154
GO:0006468 protein amino acid phosphorylation 0.0953042 1 Thaps_bicluster_0154
GO:0019538 protein metabolism 0.108453 1 Thaps_bicluster_0154
GO:0006457 protein folding 0.279136 1 Thaps_bicluster_0154
GO:0006355 regulation of transcription, DNA-dependent 0.545155 1 Thaps_bicluster_0154
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