Thaps_bicluster_0232 Residual: 0.15
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_0232 0.15 Thalassiosira pseudonana
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Displaying 1 - 12 of 12
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ThpsCp107 (rpl24) ribosomal protein L24

ThpsCp107 - (rpl24) ribosomal protein L24

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp107
ThpsCp112 (rps5) ribosomal protein S5

ThpsCp112 - (rps5) ribosomal protein S5

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp112
ThpsCp113 (secY) preprotein translocase subunit SecY

ThpsCp113 - (secY) preprotein translocase subunit SecY

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp113
ThpsCp114 (rpl36) ribosomal protein L36

ThpsCp114 - (rpl36) ribosomal protein L36

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp114
ThpsCp115 (rps13) ribosomal protein S13

ThpsCp115 - (rps13) ribosomal protein S13

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp115
ThpsCp116 (rps11) ribosomal protein S11

ThpsCp116 - (rps11) ribosomal protein S11

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp116
ThpsCp117 (rpoA) RNA polymerase alpha subunit

ThpsCp117 - (rpoA) RNA polymerase alpha subunit

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp117
ThpsCp118 (rpl13) ribosomal protein L13

ThpsCp118 - (rpl13) ribosomal protein L13

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp118
ThpsCp119 (rps9) ribosomal protein S9

ThpsCp119 - (rps9) ribosomal protein S9

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp119
ThpsCp120 (rpl31) ribosomal protein L31

ThpsCp120 - (rpl31) ribosomal protein L31

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp120
ThpsCp121 (rps12) ribosomal protein S12

ThpsCp121 - (rps12) ribosomal protein S12

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp121
ThpsCp122 (rps7) ribosomal protein S7

ThpsCp122 - (rps7) ribosomal protein S7

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp122
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