Thaps_bicluster_0087 Residual: 0.32
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_0087 0.32 Thalassiosira pseudonana
" class="views-fluidgrid-wrapper clear-block">
Displaying 1 - 38 of 38
" class="views-fluidgrid-wrapper clear-block">
11063 hypothetical protein

11063 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11063
11103 hypothetical protein

11103 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11103
11254 hypothetical protein

11254 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11254
11255 hypothetical protein

11255 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11255
11488 hypothetical protein

11488 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11488
11537 hypothetical protein

11537 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11537
11720 hypothetical protein

11720 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11720
12147 hypothetical protein

12147 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12147
21549 hypothetical protein

21549 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21549
21869 hypothetical protein

21869 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21869
22961 NPD_like

22961 - NPD_like

GO Terms:

GO:0006118, GO:0016491

CD Domains:

Go To Gene Page:

22961
23371 PRK09358

23371 - PRK09358

GO Terms:

GO:0004867, GO:0009168, GO:0019239, GO:0004000, GO:0046936

CD Domains:

Go To Gene Page:

23371
24018 hypothetical protein

24018 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

24018
24195 HA

24195 - HA

GO Terms:

NA

CD Domains:

Go To Gene Page:

24195
260805 SRP54_euk

260805 - SRP54_euk

GO Terms:

GO:0003723, GO:0005525, GO:0005786, GO:0006614, GO:0000166, GO:0017111, GO:0006605

CD Domains:

Go To Gene Page:

260805
261038

261038 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

261038
2612 hypothetical protein

2612 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2612
263580 (Tp_CSF1) regulator [Rayko]

263580 - (Tp_CSF1) regulator [Rayko]

GO Terms:

GO:0003677, GO:0006355, GO:0003676

CD Domains:

Go To Gene Page:

263580
263793 hypothetical protein

263793 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

263793
263840 hypothetical protein

263840 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

263840
264582 lysozyme_like superfamily

264582 - lysozyme_like superfamily

GO Terms:

GO:0004568, GO:0006032, GO:0009613, GO:0016998

CD Domains:

Go To Gene Page:

264582
268213 hypothetical protein

268213 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

268213
269474 (Tp_HSF_1.2c) HSF_DNA-bind

269474 - (Tp_HSF_1.2c) HSF_DNA-bind

GO Terms:

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

CD Domains:

Go To Gene Page:

269474
2755 hypothetical protein

2755 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2755
2886 hypothetical protein

2886 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2886
30683 proteasome_alpha_type_2

30683 - proteasome_alpha_type_2

GO Terms:

GO:0004298, GO:0005839, GO:0006511, GO:0004299

CD Domains:

Go To Gene Page:

30683
37485 Abhydrolase_5

37485 - Abhydrolase_5

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

37485
40627 MPP_PP2A_PP4_PP6

40627 - MPP_PP2A_PP4_PP6

GO Terms:

GO:0016787, GO:0000158, GO:0004721, GO:0004723, GO:0004724, GO:0005963, GO:0008420, GO:0008597, GO:0015071, GO:0017018, GO:0017020, GO:0017023, GO:0030357

CD Domains:

Go To Gene Page:

40627
4422 hypothetical protein

4422 - hypothetical protein

GO Terms:

GO:0005622

CD Domains:

Go To Gene Page:

4422
5897 hypothetical protein

5897 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5897
6571 hypothetical protein

6571 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6571
6705 UPF0029 superfamily

6705 - UPF0029 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

6705
7699 COG2391

7699 - COG2391

GO Terms:

NA

CD Domains:

Go To Gene Page:

7699
7743 hypothetical protein

7743 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7743
8183 hypothetical protein

8183 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8183
8835 hypothetical protein

8835 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8835
8962 2a58

8962 - 2a58

GO Terms:

GO:0006817, GO:0015321, GO:0016020

CD Domains:

Go To Gene Page:

8962
9298 hypothetical protein

9298 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9298
GO ID Go Term p-value q-value Cluster
GO:0009168 purine ribonucleoside monophosphate biosynthesis 0.00680831 1 Thaps_bicluster_0087
GO:0006817 phosphate transport 0.0113237 1 Thaps_bicluster_0087
GO:0006614 SRP-dependent cotranslational protein-membrane targeting 0.0135745 1 Thaps_bicluster_0087
GO:0006605 protein targeting 0.0158205 1 Thaps_bicluster_0087
GO:0006032 chitin catabolism 0.0180619 1 Thaps_bicluster_0087
GO:0016998 cell wall catabolism 0.0202987 1 Thaps_bicluster_0087
GO:0009613 response to pest, pathogen or parasite 0.0202987 1 Thaps_bicluster_0087
GO:0006511 ubiquitin-dependent protein catabolism 0.110164 1 Thaps_bicluster_0087
GO:0006355 regulation of transcription, DNA-dependent 0.151344 1 Thaps_bicluster_0087
GO:0006118 electron transport 0.463588 1 Thaps_bicluster_0087
Log in to post comments