Thaps_bicluster_0233 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_0233 0.34 Thalassiosira pseudonana
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Displaying 1 - 26 of 26
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10612 SseA

10612 - SseA

GO Terms:

GO:0004792

CD Domains:

Go To Gene Page:

10612
13572 (MTS1) PRK11893

13572 - (MTS1) PRK11893

GO Terms:

GO:0004812, GO:0005524, GO:0006418, GO:0004825, GO:0006431

CD Domains:

Go To Gene Page:

13572
20597 hypothetical protein

20597 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20597
20739 hypothetical protein

20739 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20739
20877 Ubiq_cyt_C_chap

20877 - Ubiq_cyt_C_chap

GO Terms:

NA

CD Domains:

Go To Gene Page:

20877
21305 hypothetical protein

21305 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21305
21804 hypothetical protein

21804 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21804
21837 HSP33

21837 - HSP33

GO Terms:

GO:0005737, GO:0006457, GO:0051082

CD Domains:

Go To Gene Page:

21837
21929 COG0116

21929 - COG0116

GO Terms:

GO:0003677, GO:0006306, GO:0008170

CD Domains:

Go To Gene Page:

21929
22635 SIK1

22635 - SIK1

GO Terms:

NA

CD Domains:

Go To Gene Page:

22635
23393 hypothetical protein

23393 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23393
24550 W2_eIF4G1_like

24550 - W2_eIF4G1_like

GO Terms:

NA

CD Domains:

Go To Gene Page:

24550
24679 PCIF1_WW superfamily

24679 - PCIF1_WW superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

24679
25027 RRM_SF superfamily

25027 - RRM_SF superfamily

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

25027
261893 Ofd1_CTDD

261893 - Ofd1_CTDD

GO Terms:

GO:0016706, GO:0019538

CD Domains:

Go To Gene Page:

261893
262598 PLN00152

262598 - PLN00152

GO Terms:

GO:0003677, GO:0003899, GO:0006351, GO:0003900, GO:0003901, GO:0003902

CD Domains:

Go To Gene Page:

262598
263880 PRK12267

263880 - PRK12267

GO Terms:

GO:0000049, GO:0004812, GO:0016876

CD Domains:

Go To Gene Page:

263880
269710 NADB_Rossmann superfamily

269710 - NADB_Rossmann superfamily

GO Terms:

GO:0008152, GO:0016491, GO:0004155

CD Domains:

Go To Gene Page:

269710
269901 spermidine synthase

269901 - spermidine synthase

GO Terms:

GO:0008757, GO:0003824, GO:0004766

CD Domains:

Go To Gene Page:

269901
29232 PLN02502

29232 - PLN02502

GO Terms:

GO:0004815, GO:0005524, GO:0006422, GO:0004824, GO:0006430, GO:0004812, GO:0005737, GO:0006418, GO:0003676

CD Domains:

Go To Gene Page:

29232
29782 (eIF6) IF6

29782 - (eIF6) IF6

GO Terms:

GO:0003743, GO:0006413

CD Domains:

Go To Gene Page:

29782
3314 hypothetical protein

3314 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3314
3416 TPR
36045 UBCc

36045 - UBCc

GO Terms:

GO:0004840, GO:0006464, GO:0006512, GO:0004842

CD Domains:

Go To Gene Page:

36045
8157 hypothetical protein

8157 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8157
GO ID Go Term p-value q-value Cluster
GO:0006351 transcription, DNA-dependent 0.00268762 1 Thaps_bicluster_0233
GO:0006431 methionyl-tRNA aminoacylation 0.00536856 1 Thaps_bicluster_0233
GO:0006430 lysyl-tRNA aminoacylation 0.00536856 1 Thaps_bicluster_0233
GO:0006418 tRNA aminoacylation for protein translation 0.0097921 1 Thaps_bicluster_0233
GO:0006422 aspartyl-tRNA aminoacylation 0.0133715 1 Thaps_bicluster_0233
GO:0006413 translational initiation 0.0626925 1 Thaps_bicluster_0233
GO:0006306 DNA methylation 0.075288 1 Thaps_bicluster_0233
GO:0006512 ubiquitin cycle 0.0926592 1 Thaps_bicluster_0233
GO:0019538 protein metabolism 0.116953 1 Thaps_bicluster_0233
GO:0006464 protein modification 0.147638 1 Thaps_bicluster_0233
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