Thaps_bicluster_0046 Residual: 0.42
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_0046 0.42 Thalassiosira pseudonana
" class="views-fluidgrid-wrapper clear-block">
Displaying 1 - 37 of 37
" class="views-fluidgrid-wrapper clear-block">
10047 hypothetical protein

10047 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10047
10298 hypothetical protein

10298 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

10298
10603 DUF563

10603 - DUF563

GO Terms:

NA

CD Domains:

Go To Gene Page:

10603
1118 hypothetical protein

1118 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1118
1186 hypothetical protein

1186 - hypothetical protein

GO Terms:

GO:0016020

CD Domains:

Go To Gene Page:

1186
17193 HP_PGM_like

17193 - HP_PGM_like

GO Terms:

GO:0003824, GO:0008152

CD Domains:

Go To Gene Page:

17193
20569 NAT_SF

20569 - NAT_SF

GO Terms:

GO:0008080

CD Domains:

Go To Gene Page:

20569
2088 UAA

2088 - UAA

GO Terms:

NA

CD Domains:

Go To Gene Page:

2088
21328 hypothetical protein

21328 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21328
21433 hypothetical protein

21433 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21433
21673 hypothetical protein

21673 - hypothetical protein

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

21673
21732 Atx10homo_assoc superfamily

21732 - Atx10homo_assoc superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

21732
22288 hypothetical protein

22288 - hypothetical protein

GO Terms:

GO:0003910, GO:0005524, GO:0006260, GO:0006281, GO:0006310

CD Domains:

Go To Gene Page:

22288
22394 hypothetical protein

22394 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22394
22601 hypothetical protein

22601 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22601
22668 SUL1

22668 - SUL1

GO Terms:

NA

CD Domains:

Go To Gene Page:

22668
2295 hypothetical protein

2295 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2295
23027 hypothetical protein

23027 - hypothetical protein

GO Terms:

GO:0005261, GO:0006812, GO:0016020

CD Domains:

Go To Gene Page:

23027
23504 hypothetical protein

23504 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23504
23770 hypothetical protein

23770 - hypothetical protein

GO Terms:

GO:0005515

CD Domains:

Go To Gene Page:

23770
23815 hypothetical protein

23815 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23815
23834 hypothetical protein

23834 - hypothetical protein

GO Terms:

GO:0008766, GO:0016881, GO:0018169

CD Domains:

Go To Gene Page:

23834
24375 P4Hc

24375 - P4Hc

GO Terms:

GO:0016706, GO:0019538

CD Domains:

Go To Gene Page:

24375
24519 hypothetical protein

24519 - hypothetical protein

GO Terms:

GO:0005576, GO:0006030, GO:0008061

CD Domains:

Go To Gene Page:

24519
24926 MATH

24926 - MATH

GO Terms:

GO:0003677

CD Domains:

Go To Gene Page:

24926
25656 Lactonase

25656 - Lactonase

GO Terms:

NA

CD Domains:

Go To Gene Page:

25656
261857 DHFR

261857 - DHFR

GO Terms:

GO:0004146, GO:0006545, GO:0009165

CD Domains:

Go To Gene Page:

261857
263074 Synaptobrevin superfamily

263074 - Synaptobrevin superfamily

GO Terms:

GO:0016021, GO:0016192

CD Domains:

Go To Gene Page:

263074
3011 hypothetical protein

3011 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3011
3037 hypothetical protein

3037 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3037
3397 FixC

3397 - FixC

GO Terms:

GO:0004174, GO:0006118

CD Domains:

Go To Gene Page:

3397
4507 hypothetical protein

4507 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4507
5913 (Tp_bZIP10) regulator [Rayko]

5913 - (Tp_bZIP10) regulator [Rayko]

GO Terms:

GO:0003677, GO:0005634, GO:0006355

CD Domains:

Go To Gene Page:

5913
7700 hypothetical protein

7700 - hypothetical protein

GO Terms:

GO:0006508, GO:0008237, GO:0008270

CD Domains:

Go To Gene Page:

7700
7725 hypothetical protein

7725 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7725
9031 VPS28 superfamily

9031 - VPS28 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

9031
960 hypothetical protein

960 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

960
GO ID Go Term p-value q-value Cluster
GO:0015977 carbon utilization by fixation of carbon dioxide 0.0031011 1 Thaps_bicluster_0046
GO:0006545 glycine biosynthesis 0.00619321 1 Thaps_bicluster_0046
GO:0009165 nucleotide biosynthesis 0.0123506 1 Thaps_bicluster_0046
GO:0016192 vesicle-mediated transport 0.0485536 1 Thaps_bicluster_0046
GO:0006310 DNA recombination 0.0574088 1 Thaps_bicluster_0046
GO:0006030 chitin metabolism 0.0632695 1 Thaps_bicluster_0046
GO:0006260 DNA replication 0.103352 1 Thaps_bicluster_0046
GO:0006812 cation transport 0.125531 1 Thaps_bicluster_0046
GO:0019538 protein metabolism 0.133715 1 Thaps_bicluster_0046
GO:0006281 DNA repair 0.133715 1 Thaps_bicluster_0046
Log in to post comments