Thaps_bicluster_0089 Residual: 0.36
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_0089 0.36 Thalassiosira pseudonana
" class="views-fluidgrid-wrapper clear-block">
Displaying 1 - 32 of 32
" class="views-fluidgrid-wrapper clear-block">
10558 HAD-SF-IIA-hyp4

10558 - HAD-SF-IIA-hyp4

GO Terms:

GO:0003824, GO:0008152, GO:0003869

CD Domains:

Go To Gene Page:

10558
10788 Methyltransf_21

10788 - Methyltransf_21

GO Terms:

NA

CD Domains:

Go To Gene Page:

10788
11187 hypothetical protein

11187 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11187
20680 hypothetical protein

20680 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20680
22842 hypothetical protein

22842 - hypothetical protein

GO Terms:

GO:0005215, GO:0006810, GO:0005975

CD Domains:

Go To Gene Page:

22842
23050 hypothetical protein

23050 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23050
23421 hypothetical protein

23421 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23421
24034 hypothetical protein

24034 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24034
24137 PTEN_C2

24137 - PTEN_C2

GO Terms:

GO:0004721, GO:0006470

CD Domains:

Go To Gene Page:

24137
24386 hypothetical protein

24386 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24386
24779 hypothetical protein

24779 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24779
25302 hypothetical protein

25302 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25302
25395 EEP superfamily

25395 - EEP superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

25395
2592 hypothetical protein

2592 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2592
261595 PLN00113

261595 - PLN00113

GO Terms:

NA

CD Domains:

Go To Gene Page:

261595
263269 (PSY3) Isoprenoid_Biosyn_C1 superfamily

263269 - (PSY3) Isoprenoid_Biosyn_C1 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

263269
264274 Amidinotransf superfamily

264274 - Amidinotransf superfamily

GO Terms:

GO:0016403

CD Domains:

Go To Gene Page:

264274
264608 Trypsin_2

264608 - Trypsin_2

GO Terms:

GO:0004295, GO:0006508, GO:0004252

CD Domains:

Go To Gene Page:

264608
268266 KBL_like

268266 - KBL_like

GO Terms:

GO:0008152, GO:0016740, GO:0009058, GO:0016769, GO:0004758, GO:0017059

CD Domains:

Go To Gene Page:

268266
3093 hypothetical protein

3093 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3093
3098 MCT1_N

3098 - MCT1_N

GO Terms:

GO:0003723

CD Domains:

Go To Gene Page:

3098
3452 hypothetical protein

3452 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3452
34632 hypothetical protein

34632 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

34632
37124 WD40

37124 - WD40

GO Terms:

GO:0004871, GO:0005834, GO:0007186

CD Domains:

Go To Gene Page:

37124
3926 COG6 superfamily

3926 - COG6 superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

3926
4589 hypothetical protein

4589 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4589
573 ATP-synt_C superfamily

573 - ATP-synt_C superfamily

GO Terms:

GO:0015986, GO:0016021, GO:0016469, GO:0046933, GO:0046961, GO:0016020, GO:0003936

CD Domains:

Go To Gene Page:

573
6132 hypothetical protein

6132 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6132
7102 hypothetical protein

7102 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7102
8304 ANK

8304 - ANK

GO Terms:

NA

CD Domains:

Go To Gene Page:

8304
8901 dTDP_HR_like_SDR_e

8901 - dTDP_HR_like_SDR_e

GO Terms:

GO:0004478, GO:0048269, GO:0048270

CD Domains:

Go To Gene Page:

8901
921 hypothetical protein

921 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

921
GO ID Go Term p-value q-value Cluster
GO:0015986 ATP synthesis coupled proton transport 0.00549663 1 Thaps_bicluster_0089
GO:0015979 photosynthesis 0.0318146 1 Thaps_bicluster_0089
GO:0007186 G-protein coupled receptor protein signaling pathway 0.0509288 1 Thaps_bicluster_0089
GO:0006470 protein amino acid dephosphorylation 0.0626988 1 Thaps_bicluster_0089
GO:0009058 biosynthesis 0.128367 1 Thaps_bicluster_0089
GO:0005975 carbohydrate metabolism 0.171169 1 Thaps_bicluster_0089
GO:0008152 metabolism 0.267706 1 Thaps_bicluster_0089
GO:0006810 transport 0.372449 1 Thaps_bicluster_0089
GO:0006118 electron transport 0.493154 1 Thaps_bicluster_0089
GO:0006508 proteolysis and peptidolysis 0.521698 1 Thaps_bicluster_0089
Log in to post comments