Thaps_bicluster_0277 Residual: 0.16
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_0277 0.16 Thalassiosira pseudonana
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Displaying 1 - 12 of 12
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10832 hypothetical protein

10832 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

10832
1393 (CAP1) Smc

1393 - (CAP1) Smc

GO Terms:

GO:0005524, GO:0005694, GO:0051276, GO:0016887, GO:0005515

CD Domains:

Go To Gene Page:

1393
268117 H2A

268117 - H2A

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

268117
32555 RNRR2

32555 - RNRR2

GO Terms:

GO:0004748, GO:0009186

CD Domains:

Go To Gene Page:

32555
33979 S_TKc

33979 - S_TKc

GO Terms:

GO:0004672, GO:0005524, GO:0006468, GO:0005515, GO:0004713, GO:0004674

CD Domains:

Go To Gene Page:

33979
35310 KISc_C_terminal
370 (RIR1_1) PLN02437

370 - (RIR1_1) PLN02437

GO Terms:

GO:0004748, GO:0005971, GO:0006260

CD Domains:

Go To Gene Page:

370
4607 hypothetical protein

4607 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4607
7092 DOMON_DOH

7092 - DOMON_DOH

GO Terms:

GO:0004500, GO:0006584

CD Domains:

Go To Gene Page:

7092
7100 Condensin2nSMC

7100 - Condensin2nSMC

GO Terms:

NA

CD Domains:

Go To Gene Page:

7100
7586 MAP65_ASE1

7586 - MAP65_ASE1

GO Terms:

NA

CD Domains:

Go To Gene Page:

7586
8522 RNRR2

8522 - RNRR2

GO Terms:

GO:0004748, GO:0009186

CD Domains:

Go To Gene Page:

8522
GO ID Go Term p-value q-value Cluster
GO:0009186 deoxyribonucleoside diphosphate metabolism 0.0000115 0.0317992 Thaps_bicluster_0277
GO:0006584 catecholamine metabolism 0.00824653 1 Thaps_bicluster_0277
GO:0051276 chromosome organization and biogenesis 0.0102986 1 Thaps_bicluster_0277
GO:0007001 chromosome organization and biogenesis (sensu Eukaryota) 0.0584155 1 Thaps_bicluster_0277
GO:0006334 nucleosome assembly 0.0623285 1 Thaps_bicluster_0277
GO:0006260 DNA replication 0.0701108 1 Thaps_bicluster_0277
GO:0007018 microtubule-based movement 0.0855012 1 Thaps_bicluster_0277
GO:0006468 protein amino acid phosphorylation 0.362866 1 Thaps_bicluster_0277
GO:0008152 metabolism 0.585137 1 Thaps_bicluster_0277
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