Thaps_bicluster_0049 Residual: 0.45
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_0049 0.45 Thalassiosira pseudonana
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Displaying 1 - 42 of 42
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10148 hypothetical protein

10148 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10148
10198 rRNA_methylase superfamily

10198 - rRNA_methylase superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

10198
10551 HAD-SF-IIA-hyp4

10551 - HAD-SF-IIA-hyp4

GO Terms:

GO:0003824, GO:0008152, GO:0003869

CD Domains:

Go To Gene Page:

10551
10629 hypothetical protein

10629 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10629
11418 hypothetical protein

11418 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11418
11505 hypothetical protein

11505 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11505
11632 hypothetical protein

11632 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11632
13996 (AMT2) amt

13996 - (AMT2) amt

GO Terms:

GO:0006810, GO:0008519, GO:0016020

CD Domains:

Go To Gene Page:

13996
1587 hypothetical protein

1587 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1587
21739 hypothetical protein

21739 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21739
24556 hypothetical protein

24556 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24556
24694 DUF1800 superfamily

24694 - DUF1800 superfamily

GO Terms:

GO:0005488, GO:0006810, GO:0008289

CD Domains:

Go To Gene Page:

24694
24772 hypothetical protein

24772 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

24772
24902 hypothetical protein

24902 - hypothetical protein

GO Terms:

GO:0000151, GO:0004842, GO:0008270, GO:0016567

CD Domains:

Go To Gene Page:

24902
25059 COG3349

25059 - COG3349

GO Terms:

NA

CD Domains:

Go To Gene Page:

25059
25264 hypothetical protein

25264 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25264
25314 hypothetical protein

25314 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25314
25374 hypothetical protein

25374 - hypothetical protein

GO Terms:

GO:0006464, GO:0003684, GO:0005524, GO:0006298

CD Domains:

Go To Gene Page:

25374
25500 hypothetical protein

25500 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25500
25511 hypothetical protein

25511 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25511
256250 hypothetical protein

256250 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

256250
260844 calcium-binding protein

260844 - calcium-binding protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

260844
262668 (Tp_HSF_4.2g) HSF_DNA-bind superfamily

262668 - (Tp_HSF_4.2g) HSF_DNA-bind superfamily

GO Terms:

GO:0003700, GO:0005634, GO:0006355, GO:0003677

CD Domains:

Go To Gene Page:

262668
264004 ATPase_P-type

264004 - ATPase_P-type

GO Terms:

GO:0008152, GO:0016787, GO:0005524, GO:0006812, GO:0015662, GO:0016020, GO:0003824, GO:0016820

CD Domains:

Go To Gene Page:

264004
264122 TyrKc

264122 - TyrKc

GO Terms:

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

CD Domains:

Go To Gene Page:

264122
268226 (AMT4) Ammonium_transp superfamily

268226 - (AMT4) Ammonium_transp superfamily

GO Terms:

GO:0006810, GO:0008519, GO:0016020

CD Domains:

Go To Gene Page:

268226
269752 crotonase-like

269752 - crotonase-like

GO Terms:

GO:0003824, GO:0008152, GO:0004300

CD Domains:

Go To Gene Page:

269752
270201 (Tpt3) hypothetical protein

270201 - (Tpt3) hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270201
2874 FKBP_C

2874 - FKBP_C

GO Terms:

GO:0006457

CD Domains:

Go To Gene Page:

2874
2992 hypothetical protein

2992 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2992
37640 EmrE

37640 - EmrE

GO Terms:

GO:0016021

CD Domains:

Go To Gene Page:

37640
3866 hypothetical protein

3866 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3866
4576 MATE_like superfamily

4576 - MATE_like superfamily

GO Terms:

GO:0006855, GO:0015238, GO:0015297, GO:0016020

CD Domains:

Go To Gene Page:

4576
4807 SRPBCC superfamily

4807 - SRPBCC superfamily

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

4807
4816 hypothetical protein

4816 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4816
4834 PTPS

4834 - PTPS

GO Terms:

NA

CD Domains:

Go To Gene Page:

4834
5428 hypothetical protein

5428 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5428
7048 Nucleotid_trans superfamily

7048 - Nucleotid_trans superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

7048
7551 hypothetical protein

7551 - hypothetical protein

GO Terms:

GO:0043087

CD Domains:

Go To Gene Page:

7551
7679 hypothetical protein

7679 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7679
7775 2OG-FeII_Oxy_3 superfamily

7775 - 2OG-FeII_Oxy_3 superfamily

GO Terms:

GO:0016706, GO:0019538

CD Domains:

Go To Gene Page:

7775
9910 Peptidase_C19 superfamily

9910 - Peptidase_C19 superfamily

GO Terms:

GO:0004197, GO:0004221, GO:0006511

CD Domains:

Go To Gene Page:

9910
GO ID Go Term p-value q-value Cluster
GO:0006855 multidrug transport 0.0243591 1 Thaps_bicluster_0049
GO:0006810 transport 0.0248472 1 Thaps_bicluster_0049
GO:0043087 regulation of GTPase activity 0.0346268 1 Thaps_bicluster_0049
GO:0006298 mismatch repair 0.0548579 1 Thaps_bicluster_0049
GO:0006812 cation transport 0.141059 1 Thaps_bicluster_0049
GO:0019538 protein metabolism 0.150166 1 Thaps_bicluster_0049
GO:0006511 ubiquitin-dependent protein catabolism 0.165143 1 Thaps_bicluster_0049
GO:0008152 metabolism 0.167146 1 Thaps_bicluster_0049
GO:0006464 protein modification 0.188591 1 Thaps_bicluster_0049
GO:0016567 protein ubiquitination 0.244527 1 Thaps_bicluster_0049
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