Thaps_bicluster_0106 Residual: 0.18
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_0106 0.18 Thalassiosira pseudonana
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Displaying 1 - 18 of 18
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ThpsCp025 (rpl20) ribosomal protein L20

ThpsCp025 - (rpl20) ribosomal protein L20

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp025
ThpsCp029 (rpl1) ribosomal protein L1

ThpsCp029 - (rpl1) ribosomal protein L1

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp029
ThpsCp081 (secA) preprotein translocase subunit SecA

ThpsCp081 - (secA) preprotein translocase subunit SecA

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp081
ThpsCp096 (rpl4) ribosomal protein L4

ThpsCp096 - (rpl4) ribosomal protein L4

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp096
ThpsCp097 (rpl23) ribosomal protein L23

ThpsCp097 - (rpl23) ribosomal protein L23

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp097
ThpsCp098 (rpl2) ribosomal protein L2

ThpsCp098 - (rpl2) ribosomal protein L2

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp098
ThpsCp099 (rps19) ribosomal protein S19

ThpsCp099 - (rps19) ribosomal protein S19

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp099
ThpsCp100 (ycf88) hypothetical protein

ThpsCp100 - (ycf88) hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp100
ThpsCp101 (rpl22) ribosomal protein L22

ThpsCp101 - (rpl22) ribosomal protein L22

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp101
ThpsCp102 (rps3) ribosomal protein S3

ThpsCp102 - (rps3) ribosomal protein S3

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp102
ThpsCp103 (rpl16) ribosomal protein L16

ThpsCp103 - (rpl16) ribosomal protein L16

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp103
ThpsCp104 (rpl29) 50S ribosomal protein L29

ThpsCp104 - (rpl29) 50S ribosomal protein L29

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp104
ThpsCp105 (rps17) ribosomal protein S17

ThpsCp105 - (rps17) ribosomal protein S17

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp105
ThpsCp106 (rpl14) ribosomal protein L14

ThpsCp106 - (rpl14) ribosomal protein L14

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp106
ThpsCp108 (rpl5) ribosomal protein L5

ThpsCp108 - (rpl5) ribosomal protein L5

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp108
ThpsCp109 (rps8) ribosomal protein S8

ThpsCp109 - (rps8) ribosomal protein S8

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp109
ThpsCp110 (rpl6) ribosomal protein L6

ThpsCp110 - (rpl6) ribosomal protein L6

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp110
ThpsCp111 (rpl18) ribosomal protein L18

ThpsCp111 - (rpl18) ribosomal protein L18

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp111
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