Thaps_bicluster_0103 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_0103 0.42 Thalassiosira pseudonana
Displaying 1 - 38 of 38
10346 hypothetical protein

10346 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10346
10363 SET

10363 - SET

GO Terms:

NA

CD Domains:

Go To Gene Page:

10363
11142 hypothetical protein

11142 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11142
11176 MPP_CSTP1

11176 - MPP_CSTP1

GO Terms:

GO:0016787

CD Domains:

Go To Gene Page:

11176
11193 DUF159

11193 - DUF159

GO Terms:

NA

CD Domains:

Go To Gene Page:

11193
11319 hypothetical protein

11319 - hypothetical protein

GO Terms:

GO:0004842

CD Domains:

Go To Gene Page:

11319
17242 SPFH_like_u4

17242 - SPFH_like_u4

GO Terms:

NA

CD Domains:

Go To Gene Page:

17242
1932 HA

1932 - HA

GO Terms:

NA

CD Domains:

Go To Gene Page:

1932
19977 TRX_family

19977 - TRX_family

GO Terms:

GO:0005489, GO:0006118, GO:0004791

CD Domains:

Go To Gene Page:

19977
21362 hypothetical protein

21362 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21362
21720 hypothetical protein

21720 - hypothetical protein

GO Terms:

GO:0008270

CD Domains:

Go To Gene Page:

21720
22016 ABC_MTABC3_MDL1_MDL2

22016 - ABC_MTABC3_MDL1_MDL2

GO Terms:

GO:0005524, GO:0006810, GO:0016021, GO:0042626, GO:0016887, GO:0000166, GO:0017111, GO:0004298, GO:0004299

CD Domains:

Go To Gene Page:

22016
22155 hypothetical protein

22155 - hypothetical protein

GO Terms:

GO:0005249, GO:0006813, GO:0008076, GO:0016020

CD Domains:

Go To Gene Page:

22155
22297 VPS9 superfamily

22297 - VPS9 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

22297
22430 SOUL

22430 - SOUL

GO Terms:

NA

CD Domains:

Go To Gene Page:

22430
22644 hypothetical protein

22644 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22644
23409 hypothetical protein

23409 - hypothetical protein

GO Terms:

GO:0003677, GO:0008270

CD Domains:

Go To Gene Page:

23409
23771 hypothetical protein

23771 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23771
24456 hypothetical protein

24456 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24456
24659 DnaQ_like_exo superfamily

24659 - DnaQ_like_exo superfamily

GO Terms:

GO:0003676, GO:0005622, GO:0008408

CD Domains:

Go To Gene Page:

24659
24738 hypothetical protein

24738 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24738
24971 Tcp11 superfamily

24971 - Tcp11 superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

24971
25102 hypothetical protein

25102 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25102
268460 PolY superfamily

268460 - PolY superfamily

GO Terms:

GO:0006281, GO:0005622, GO:0003720, GO:0003724, GO:0003896, GO:0004779, GO:0008192, GO:0008193, GO:0008723, GO:0008905, GO:0016779, GO:0017103

CD Domains:

Go To Gene Page:

268460
31845 PLN02428

31845 - PLN02428

GO Terms:

GO:0009107, GO:0016992, GO:0003824, GO:0005506

CD Domains:

Go To Gene Page:

31845
32176 GABARAP

32176 - GABARAP

GO Terms:

NA

CD Domains:

Go To Gene Page:

32176
33480 DUF924

33480 - DUF924

GO Terms:

NA

CD Domains:

Go To Gene Page:

33480
36015 hypothetical protein

36015 - hypothetical protein

GO Terms:

GO:0016021

CD Domains:

Go To Gene Page:

36015
37995 DUF2838

37995 - DUF2838

GO Terms:

NA

CD Domains:

Go To Gene Page:

37995
3953 hypothetical protein

3953 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3953
4395 hypothetical protein

4395 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4395
5388 hypothetical protein

5388 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5388
6396 Dabb

6396 - Dabb

GO Terms:

NA

CD Domains:

Go To Gene Page:

6396
6476 hypothetical protein

6476 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6476
6723 hypothetical protein

6723 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6723
7268 ATPase-IIIA_H

7268 - ATPase-IIIA_H

GO Terms:

GO:0005524, GO:0015662, GO:0015992, GO:0016020, GO:0006812, GO:0003824, GO:0008152, GO:0016021, GO:0016887, GO:0016820, GO:0008553

CD Domains:

Go To Gene Page:

7268
7667 hypothetical protein

7667 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7667
7889 hypothetical protein

7889 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7889
GO ID Go Term p-value q-value Cluster
GO:0009107 lipoate biosynthesis 0.00742418 1 Thaps_bicluster_0103
GO:0015992 proton transport 0.0275887 1 Thaps_bicluster_0103
GO:0006813 potassium ion transport 0.0402303 1 Thaps_bicluster_0103
GO:0006812 cation transport 0.0772831 1 Thaps_bicluster_0103
GO:0015986 ATP synthesis coupled proton transport 0.0824713 1 Thaps_bicluster_0103
GO:0006281 DNA repair 0.0824713 1 Thaps_bicluster_0103
GO:0006810 transport 0.294845 1 Thaps_bicluster_0103
GO:0006118 electron transport 0.399203 1 Thaps_bicluster_0103
GO:0008152 metabolism 0.546944 1 Thaps_bicluster_0103
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