Thaps_bicluster_0068 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_0068 0.42 Thalassiosira pseudonana
" class="views-fluidgrid-wrapper clear-block">
Displaying 1 - 29 of 29
" class="views-fluidgrid-wrapper clear-block">
11097 Sulfotransfer_2 superfamily

11097 - Sulfotransfer_2 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

11097
1316 hypothetical protein

1316 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1316
1388 hypothetical protein

1388 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1388
20904 WrbA

20904 - WrbA

GO Terms:

NA

CD Domains:

Go To Gene Page:

20904
21606 plant_peroxidase_like superfamily

21606 - plant_peroxidase_like superfamily

GO Terms:

GO:0004601, GO:0006979, GO:0042972

CD Domains:

Go To Gene Page:

21606
22220 hypothetical protein

22220 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22220
22304 hypothetical protein

22304 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22304
23557 hypothetical protein

23557 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23557
23641 hypothetical protein

23641 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23641
23778 hypothetical protein

23778 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23778
23813 hypothetical protein

23813 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23813
23814 probable serine protease inhibitor

23814 - probable serine protease inhibitor

GO Terms:

NA

CD Domains:

Go To Gene Page:

23814
24077 hypothetical protein

24077 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24077
24165 hypothetical protein

24165 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

24165
24243 hypothetical protein

24243 - hypothetical protein

GO Terms:

GO:0005524, GO:0006810, GO:0016020, GO:0042626

CD Domains:

Go To Gene Page:

24243
24597 hypothetical protein

24597 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24597
24699 hypothetical protein

24699 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24699
25807 hypothetical protein

25807 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25807
25814 hypothetical protein

25814 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25814
2594 hypothetical protein

2594 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2594
261727 KR

261727 - KR

GO Terms:

GO:0005179, GO:0005576

CD Domains:

Go To Gene Page:

261727
267958 peroxinectin_like_bacterial

267958 - peroxinectin_like_bacterial

GO Terms:

GO:0004601

CD Domains:

Go To Gene Page:

267958
31166 AdoMet_dc superfamily

31166 - AdoMet_dc superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

31166
31499 DSPc superfamily

31499 - DSPc superfamily

GO Terms:

GO:0006470, GO:0008138, GO:0004721

CD Domains:

Go To Gene Page:

31499
35639 PLN02824

35639 - PLN02824

GO Terms:

GO:0003824, GO:0006725, GO:0016787

CD Domains:

Go To Gene Page:

35639
41754 PKc_like superfamily

41754 - PKc_like superfamily

GO Terms:

GO:0004867, GO:0004672, GO:0005524, GO:0006468, GO:0004713, GO:0003676, GO:0004522, GO:0004674

CD Domains:

Go To Gene Page:

41754
4385 hypothetical protein

4385 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4385
8110 HSBP1

8110 - HSBP1

GO Terms:

NA

CD Domains:

Go To Gene Page:

8110
8382 hypothetical protein

8382 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8382
GO ID Go Term p-value q-value Cluster
GO:0006470 protein amino acid dephosphorylation 0.0265997 1 Thaps_bicluster_0068
GO:0006810 transport 0.176337 1 Thaps_bicluster_0068
GO:0006468 protein amino acid phosphorylation 0.201698 1 Thaps_bicluster_0068
GO:0006725 aromatic compound metabolism 0.0225447 1 Thaps_bicluster_0068
GO:0006979 response to oxidative stress 0.0245739 1 Thaps_bicluster_0068
Log in to post comments