Thaps_bicluster_0031 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_0031 0.36 Thalassiosira pseudonana
" class="views-fluidgrid-wrapper clear-block">
Displaying 1 - 46 of 46
" class="views-fluidgrid-wrapper clear-block">
1009 hypothetical protein

1009 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1009
10292 2A1904

10292 - 2A1904

GO Terms:

GO:0016021

CD Domains:

Go To Gene Page:

10292
10518 hypothetical protein

10518 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10518
10695 EVE superfamily

10695 - EVE superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

10695
10835 hypothetical protein

10835 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10835
11005 hypothetical protein

11005 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11005
11244 (Tp_HSF_3.5f) HSF_DNA-bind superfamily

11244 - (Tp_HSF_3.5f) HSF_DNA-bind superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

11244
11343 FA_hydroxylase

11343 - FA_hydroxylase

GO Terms:

GO:0003824, GO:0008152

CD Domains:

Go To Gene Page:

11343
12171 hypothetical protein

12171 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12171
13556 BglC

13556 - BglC

GO Terms:

GO:0004338

CD Domains:

Go To Gene Page:

13556
15537 KISc

15537 - KISc

GO Terms:

GO:0003777, GO:0005524, GO:0005875, GO:0007018

CD Domains:

Go To Gene Page:

15537
16722 ABC_subfamily_A

16722 - ABC_subfamily_A

GO Terms:

GO:0005524, GO:0016887, GO:0000166, GO:0017111

CD Domains:

Go To Gene Page:

16722
20707 hypothetical protein

20707 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20707
22710 PDI_a_family

22710 - PDI_a_family

GO Terms:

GO:0005489, GO:0006118

CD Domains:

Go To Gene Page:

22710
2301 hypothetical protein

2301 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2301
23390 hypothetical protein

23390 - hypothetical protein

GO Terms:

GO:0000074, GO:0005634

CD Domains:

Go To Gene Page:

23390
23724 hypothetical protein

23724 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23724
24049 hypothetical protein

24049 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24049
24204 lysozyme_like superfamily

24204 - lysozyme_like superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

24204
25527 hypothetical protein

25527 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25527
25675 LRR_RI superfamily

25675 - LRR_RI superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

25675
262104 PI-PLCc_GDPD_SF superfamily

262104 - PI-PLCc_GDPD_SF superfamily

GO Terms:

GO:0004629, GO:0007165, GO:0007242, GO:0004435, GO:0006629

CD Domains:

Go To Gene Page:

262104
263389 hypothetical protein

263389 - hypothetical protein

GO Terms:

GO:0000156, GO:0000160, GO:0003677, GO:0006355

CD Domains:

Go To Gene Page:

263389
26457 (GR) PRK06116

26457 - (GR) PRK06116

GO Terms:

GO:0006118, GO:0016491, GO:0050660, GO:0015036, GO:0005737, GO:0004362

CD Domains:

Go To Gene Page:

26457
264691 B9-C2

264691 - B9-C2

GO Terms:

NA

CD Domains:

Go To Gene Page:

264691
2647 lysozyme_like superfamily

2647 - lysozyme_like superfamily

GO Terms:

GO:0004568, GO:0006032, GO:0009613, GO:0016998, GO:0008843

CD Domains:

Go To Gene Page:

2647
264740 ABC_subfamily_A

264740 - ABC_subfamily_A

GO Terms:

GO:0005524, GO:0016887, GO:0000166, GO:0017111

CD Domains:

Go To Gene Page:

264740
31846 Bacterial_IMPase_like_1

31846 - Bacterial_IMPase_like_1

GO Terms:

GO:0004437, GO:0008934

CD Domains:

Go To Gene Page:

31846
3551 hypothetical protein

3551 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3551
36213 PKc_like superfamily

36213 - PKc_like superfamily

GO Terms:

GO:0004672, GO:0004682, GO:0004691, GO:0005952, GO:0005956, GO:0008603, GO:0008605

CD Domains:

Go To Gene Page:

36213
36679 PEMT

36679 - PEMT

GO Terms:

NA

CD Domains:

Go To Gene Page:

36679
38261 GRIM-19 superfamily

38261 - GRIM-19 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

38261
3943 4HBT

3943 - 4HBT

GO Terms:

NA

CD Domains:

Go To Gene Page:

3943
4117 hypothetical protein

4117 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4117
4359 hypothetical protein

4359 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4359
5381 hypothetical protein

5381 - hypothetical protein

GO Terms:

GO:0004672, GO:0005524, GO:0006468

CD Domains:

Go To Gene Page:

5381
5503 hypothetical protein

5503 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5503
6535 SET

6535 - SET

GO Terms:

GO:0018024

CD Domains:

Go To Gene Page:

6535
7493 hypothetical protein

7493 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7493
7790 hypothetical protein

7790 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7790
8953 hypothetical protein

8953 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8953
8968 PA28_beta superfamily

8968 - PA28_beta superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

8968
9170 hypothetical protein

9170 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9170
9289 Tryp_SPc

9289 - Tryp_SPc

GO Terms:

GO:0004295, GO:0006508, GO:0004263, GO:0030019

CD Domains:

Go To Gene Page:

9289
932 Choline_transpo superfamily

932 - Choline_transpo superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

932
9568 COG3899

9568 - COG3899

GO Terms:

GO:0005524, GO:0016887

CD Domains:

Go To Gene Page:

9568
GO ID Go Term p-value q-value Cluster
GO:0006032 chitin catabolism 0.000403654 1 Thaps_bicluster_0031
GO:0016998 cell wall catabolism 0.000517768 1 Thaps_bicluster_0031
GO:0009613 response to pest, pathogen or parasite 0.000517768 1 Thaps_bicluster_0031
GO:0000160 two-component signal transduction system (phosphorelay) 0.101073 1 Thaps_bicluster_0031
GO:0006629 lipid metabolism 0.108162 1 Thaps_bicluster_0031
GO:0007165 signal transduction 0.146211 1 Thaps_bicluster_0031
GO:0007242 intracellular signaling cascade 0.152962 1 Thaps_bicluster_0031
GO:0007018 microtubule-based movement 0.156318 1 Thaps_bicluster_0031
GO:0000074 regulation of cell cycle 0.211484 1 Thaps_bicluster_0031
GO:0006118 electron transport 0.281111 1 Thaps_bicluster_0031
Log in to post comments