Thaps_bicluster_0140 Residual: 0.29
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_0140 0.29 Thalassiosira pseudonana
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Displaying 1 - 22 of 22
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10416 hypothetical protein

10416 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10416
10885 hypothetical protein

10885 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10885
11832 hypothetical protein

11832 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11832
1926 hypothetical protein

1926 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1926
21978 hypothetical protein

21978 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21978
25724 AIM24

25724 - AIM24

GO Terms:

NA

CD Domains:

Go To Gene Page:

25724
262610 ADPRase_NUDT5

262610 - ADPRase_NUDT5

GO Terms:

GO:0047631

CD Domains:

Go To Gene Page:

262610
262819 TPR

262819 - TPR

GO Terms:

NA

CD Domains:

Go To Gene Page:

262819
263422 (BIP3) PTZ00009

263422 - (BIP3) PTZ00009

GO Terms:

GO:0005524

CD Domains:

Go To Gene Page:

263422
3071 NA

3071 - NA

GO Terms:

NA

CD Domains:

Go To Gene Page:

3071
33104 LDH_like_2

33104 - LDH_like_2

GO Terms:

GO:0006564, GO:0016616, GO:0000252, GO:0000253, GO:0004448, GO:0004495, GO:0008875, GO:0016229, GO:0018451, GO:0018452, GO:0018453, GO:0048258

CD Domains:

Go To Gene Page:

33104
3354 hypothetical protein

3354 - hypothetical protein

GO Terms:

GO:0008757

CD Domains:

Go To Gene Page:

3354
34810 Calreticulin

34810 - Calreticulin

GO Terms:

GO:0005509, GO:0005783, GO:0006457, GO:0051082

CD Domains:

Go To Gene Page:

34810
35036 DER1 superfamily

35036 - DER1 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

35036
35401 COG0523

35401 - COG0523

GO Terms:

NA

CD Domains:

Go To Gene Page:

35401
3730 hypothetical protein

3730 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3730
38191 (HSP60) groEL

38191 - (HSP60) groEL

GO Terms:

GO:0005515, GO:0005524, GO:0044267, GO:0003763

CD Domains:

Go To Gene Page:

38191
4130 hypothetical protein

4130 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4130
454 PRK09601

454 - PRK09601

GO Terms:

GO:0005525, GO:0005554

CD Domains:

Go To Gene Page:

454
6209 Amidohydro_2

6209 - Amidohydro_2

GO Terms:

GO:0001760, GO:0008152

CD Domains:

Go To Gene Page:

6209
6979 GATase1_Hsp31_like

6979 - GATase1_Hsp31_like

GO Terms:

NA

CD Domains:

Go To Gene Page:

6979
8349 NADB_Rossmann superfamily

8349 - NADB_Rossmann superfamily

GO Terms:

GO:0045552

CD Domains:

Go To Gene Page:

8349
GO ID Go Term p-value q-value Cluster
GO:0006564 L-serine biosynthesis 0.00742418 1 Thaps_bicluster_0140
GO:0044267 cellular protein metabolism 0.0115308 1 Thaps_bicluster_0140
GO:0006457 protein folding 0.103279 1 Thaps_bicluster_0140
GO:0008152 metabolism 0.296505 1 Thaps_bicluster_0140
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