Thaps_bicluster_0236 Residual: 0.32
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_0236 0.32 Thalassiosira pseudonana
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Displaying 1 - 22 of 22
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19818 (RT15) Ribosomal_S15p_S13e

19818 - (RT15) Ribosomal_S15p_S13e

GO Terms:

GO:0003735, GO:0005622, GO:0005840, GO:0006412

CD Domains:

Go To Gene Page:

19818
20452 (RK28) Ribosomal_L28

20452 - (RK28) Ribosomal_L28

GO Terms:

GO:0003735, GO:0005622, GO:0005840, GO:0006412

CD Domains:

Go To Gene Page:

20452
20683 hypothetical protein

20683 - hypothetical protein

GO Terms:

GO:0008080

CD Domains:

Go To Gene Page:

20683
21419 hypothetical protein

21419 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21419
22049 hypothetical protein

22049 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22049
22449 hypothetical protein

22449 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22449
22725 hypothetical protein

22725 - hypothetical protein

GO Terms:

GO:0003677

CD Domains:

Go To Gene Page:

22725
22944 DUF747

22944 - DUF747

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

22944
24163 PLN02788

24163 - PLN02788

GO Terms:

GO:0005215, GO:0006810, GO:0004826, GO:0005524, GO:0006432, GO:0005737, GO:0004812, GO:0006418, GO:0009328

CD Domains:

Go To Gene Page:

24163
260833 Uup

260833 - Uup

GO Terms:

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

CD Domains:

Go To Gene Page:

260833
268398 PRK04173

268398 - PRK04173

GO Terms:

GO:0004812, GO:0005524, GO:0006418, GO:0004820, GO:0006426, GO:0006412, GO:0009345

CD Domains:

Go To Gene Page:

268398
269763 Riboflavin_deaminase-reductase

269763 - Riboflavin_deaminase-reductase

GO Terms:

GO:0008270, GO:0016787

CD Domains:

Go To Gene Page:

269763
269953 S49_Sppa_N_C

269953 - S49_Sppa_N_C

GO Terms:

GO:0006508, GO:0008233

CD Domains:

Go To Gene Page:

269953
273 PRK04004

273 - PRK04004

GO Terms:

GO:0003743, GO:0005525, GO:0006413, GO:0006412, GO:0003924, GO:0008547

CD Domains:

Go To Gene Page:

273
29049 IF-2

29049 - IF-2

GO Terms:

GO:0003743, GO:0005525, GO:0006413, GO:0006412, GO:0003924, GO:0008547

CD Domains:

Go To Gene Page:

29049
33044 PLN02502

33044 - PLN02502

GO Terms:

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

CD Domains:

Go To Gene Page:

33044
37277 tig

37277 - tig

GO Terms:

GO:0006457, GO:0015031

CD Domains:

Go To Gene Page:

37277
38248 (ALATS1) PLN02900

38248 - (ALATS1) PLN02900

GO Terms:

GO:0004813, GO:0005524, GO:0006419, GO:0003676

CD Domains:

Go To Gene Page:

38248
4138 hypothetical protein

4138 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4138
6610 hypothetical protein

6610 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6610
9206 hypothetical protein

9206 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9206
GO ID Go Term p-value q-value Cluster
GO:0006412 protein biosynthesis 0.000457113 1 Thaps_bicluster_0236
GO:0006418 tRNA aminoacylation for protein translation 0.00153447 1 Thaps_bicluster_0236
GO:0006413 translational initiation 0.00424548 1 Thaps_bicluster_0236
GO:0006419 alanyl-tRNA aminoacylation 0.00825334 1 Thaps_bicluster_0236
GO:0006426 glycyl-tRNA aminoacylation 0.00825334 1 Thaps_bicluster_0236
GO:0006430 lysyl-tRNA aminoacylation 0.00825334 1 Thaps_bicluster_0236
GO:0009107 lipoate biosynthesis 0.0164419 1 Thaps_bicluster_0236
GO:0006432 phenylalanyl-tRNA aminoacylation 0.0164419 1 Thaps_bicluster_0236
GO:0015031 protein transport 0.163848 1 Thaps_bicluster_0236
GO:0006464 protein modification 0.21803 1 Thaps_bicluster_0236
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