Thaps_bicluster_0002 Residual: 0.43
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_0002 0.43 Thalassiosira pseudonana
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Displaying 1 - 37 of 37
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10239 hypothetical protein

10239 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10239
11514 hypothetical protein

11514 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11514
11609 hypothetical protein

11609 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11609
11717 hypothetical protein

11717 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11717
15961 5-FTHF_cyc-lig superfamily

15961 - 5-FTHF_cyc-lig superfamily

GO Terms:

GO:0003824, GO:0008152

CD Domains:

Go To Gene Page:

15961
20750 hypothetical protein

20750 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20750
20889 Aa_trans superfamily

20889 - Aa_trans superfamily

GO Terms:

GO:0005279, GO:0006865, GO:0016020

CD Domains:

Go To Gene Page:

20889
21186 hypothetical protein

21186 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21186
21785 Pyr_redox_2

21785 - Pyr_redox_2

GO Terms:

GO:0006118, GO:0016491, GO:0015036, GO:0003954

CD Domains:

Go To Gene Page:

21785
22522 PI-PLCc_GDPD_SF superfamily

22522 - PI-PLCc_GDPD_SF superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

22522
22796 hypothetical protein

22796 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22796
23113 hypothetical protein

23113 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23113
23702 hypothetical protein

23702 - hypothetical protein

GO Terms:

GO:0031177

CD Domains:

Go To Gene Page:

23702
23719 hypothetical protein

23719 - hypothetical protein

GO Terms:

GO:0005524, GO:0015986, GO:0016469, GO:0046933, GO:0046961

CD Domains:

Go To Gene Page:

23719
23829 hypothetical protein

23829 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23829
23975 hypothetical protein

23975 - hypothetical protein

GO Terms:

GO:0008570

CD Domains:

Go To Gene Page:

23975
24307 hypothetical protein

24307 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24307
24577 hypothetical protein

24577 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24577
263456 DUF938 superfamily

263456 - DUF938 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

263456
263472 hypothetical protein

263472 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

263472
268172 Peptidase_M50B

268172 - Peptidase_M50B

GO Terms:

NA

CD Domains:

Go To Gene Page:

268172
35231 EFh

35231 - EFh

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

35231
3980 DDE_Tnp_4

3980 - DDE_Tnp_4

GO Terms:

NA

CD Domains:

Go To Gene Page:

3980
4136 hypothetical protein

4136 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4136
4282 hypothetical protein

4282 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4282
4814 hypothetical protein

4814 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4814
6365 hypothetical protein

6365 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6365
6721 hypothetical protein

6721 - hypothetical protein

GO Terms:

GO:0003676, GO:0004308

CD Domains:

Go To Gene Page:

6721
7076 GAT_1 superfamily

7076 - GAT_1 superfamily

GO Terms:

GO:0006508, GO:0008236

CD Domains:

Go To Gene Page:

7076
8820 CHD

8820 - CHD

GO Terms:

GO:0007242, GO:0009190, GO:0016849, GO:0004016, GO:0008294

CD Domains:

Go To Gene Page:

8820
8828 WD40 superfamily

8828 - WD40 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

8828
8845 hypothetical protein

8845 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8845
8860 hypothetical protein

8860 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8860
8917 hypothetical protein

8917 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8917
9381 hypothetical protein

9381 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9381
9647 hypothetical protein

9647 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9647
GO ID Go Term p-value q-value Cluster
GO:0009190 cyclic nucleotide biosynthesis 0.0358377 1 Thaps_bicluster_0002
GO:0006865 amino acid transport 0.0470024 1 Thaps_bicluster_0002
GO:0007242 intracellular signaling cascade 0.0674371 1 Thaps_bicluster_0002
GO:0015986 ATP synthesis coupled proton transport 0.073647 1 Thaps_bicluster_0002
GO:0006468 protein amino acid phosphorylation 0.302703 1 Thaps_bicluster_0002
GO:0006118 electron transport 0.364179 1 Thaps_bicluster_0002
GO:0006508 proteolysis and peptidolysis 0.38827 1 Thaps_bicluster_0002
GO:0008152 metabolism 0.505245 1 Thaps_bicluster_0002
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