Thaps_bicluster_0209 Residual: 0.34
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_0209 0.34 Thalassiosira pseudonana
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Displaying 1 - 31 of 31
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10786 hypothetical protein

10786 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10786
10817 hypothetical protein

10817 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10817
11484 hypothetical protein

11484 - hypothetical protein

GO Terms:

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

CD Domains:

Go To Gene Page:

11484
11545 SCP superfamily

11545 - SCP superfamily

GO Terms:

GO:0005576

CD Domains:

Go To Gene Page:

11545
11770 hypothetical protein

11770 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11770
11915 hypothetical protein

11915 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11915
17861 SDR_c

17861 - SDR_c

GO Terms:

GO:0008152, GO:0016491, GO:0051341

CD Domains:

Go To Gene Page:

17861
2081 RecA-like_NTPases superfamily

2081 - RecA-like_NTPases superfamily

GO Terms:

GO:0003684, GO:0005524, GO:0006281, GO:0006310, GO:0008094

CD Domains:

Go To Gene Page:

2081
20982 Grp1_Fun34_YaaH superfamily

20982 - Grp1_Fun34_YaaH superfamily

GO Terms:

GO:0005554, GO:0016020

CD Domains:

Go To Gene Page:

20982
22018 (Tp_HSF_2.7h) HSF_DNA-bind superfamily

22018 - (Tp_HSF_2.7h) HSF_DNA-bind superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

22018
22401 Lactamase_B

22401 - Lactamase_B

GO Terms:

NA

CD Domains:

Go To Gene Page:

22401
23802 (Tp_HSF_2.7e) HSF_DNA-bind superfamily

23802 - (Tp_HSF_2.7e) HSF_DNA-bind superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

23802
24457 hypothetical protein

24457 - hypothetical protein

GO Terms:

GO:0003677

CD Domains:

Go To Gene Page:

24457
24952 hypothetical protein

24952 - hypothetical protein

GO Terms:

GO:0000074

CD Domains:

Go To Gene Page:

24952
25669 EEP superfamily

25669 - EEP superfamily

GO Terms:

GO:0004437

CD Domains:

Go To Gene Page:

25669
262258 P_permease

262258 - P_permease

GO Terms:

NA

CD Domains:

Go To Gene Page:

262258
31358 TPR

31358 - TPR

GO Terms:

NA

CD Domains:

Go To Gene Page:

31358
3228 hypothetical protein

3228 - hypothetical protein

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

3228
32716 PRK05290

32716 - PRK05290

GO Terms:

GO:0005737, GO:0006118, GO:0016491, GO:0005506, GO:0016661

CD Domains:

Go To Gene Page:

32716
3389 hypothetical protein

3389 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3389
4174 hypothetical protein

4174 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4174
5476 Mito_carr

5476 - Mito_carr

GO Terms:

GO:0005488, GO:0006810, GO:0016020

CD Domains:

Go To Gene Page:

5476
5647 hypothetical protein

5647 - hypothetical protein

GO Terms:

GO:0000151, GO:0004842, GO:0008270, GO:0016567, GO:0005509

CD Domains:

Go To Gene Page:

5647
6517 TLD superfamily

6517 - TLD superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

6517
7200 hypothetical protein

7200 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7200
7231 hypothetical protein

7231 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7231
7872 hypothetical protein

7872 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7872
8700 hypothetical protein

8700 - hypothetical protein

GO Terms:

GO:0004623, GO:0005509, GO:0016042

CD Domains:

Go To Gene Page:

8700
9304 hypothetical protein

9304 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9304
9328 hypothetical protein

9328 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9328
935 hypothetical protein

935 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

935
GO ID Go Term p-value q-value Cluster
GO:0016042 lipid catabolism 0.00536856 1 Thaps_bicluster_0209
GO:0006310 DNA recombination 0.0499389 1 Thaps_bicluster_0209
GO:0006813 potassium ion transport 0.0576102 1 Thaps_bicluster_0209
GO:0051341 regulation of oxidoreductase activity 0.0601545 1 Thaps_bicluster_0209
GO:0006350 transcription 0.0777882 1 Thaps_bicluster_0209
GO:0006281 DNA repair 0.116953 1 Thaps_bicluster_0209
GO:0000074 regulation of cell cycle 0.149957 1 Thaps_bicluster_0209
GO:0016567 protein ubiquitination 0.192928 1 Thaps_bicluster_0209
GO:0006355 regulation of transcription, DNA-dependent 0.197871 1 Thaps_bicluster_0209
GO:0006810 transport 0.396381 1 Thaps_bicluster_0209
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