Thaps_bicluster_0010 Residual: 0.38
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.

Summary

Title Residual Model version Organism
Thaps_bicluster_0010 0.38 Thalassiosira pseudonana

Module Plots

Motifs

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Members

Displaying 1 - 58 of 58
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10374 hypothetical protein

10374 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10374
10699 Chorein_N

10699 - Chorein_N

GO Terms:

NA

CD Domains:

Go To Gene Page:

10699
11077 FG-GAP_2

11077 - FG-GAP_2

GO Terms:

GO:0007155, GO:0007160, GO:0008305, GO:0004601, GO:0006979

CD Domains:

Go To Gene Page:

11077
11084 plant_peroxidase_like

11084 - plant_peroxidase_like

GO Terms:

GO:0007155, GO:0007160, GO:0008305, GO:0004601, GO:0006979

CD Domains:

Go To Gene Page:

11084
11235 ZnMc superfamily

11235 - ZnMc superfamily

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

11235
11239 hypothetical protein

11239 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

11239
11975 hypothetical protein

11975 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11975
12095 hypothetical protein

12095 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12095
1408 hypothetical protein

1408 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1408
1725 LCM

1725 - LCM

GO Terms:

NA

CD Domains:

Go To Gene Page:

1725
20648 hypothetical protein

20648 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20648
20778 (Tp_TAZ6) zf-TAZ

20778 - (Tp_TAZ6) zf-TAZ

GO Terms:

GO:0003712, GO:0005634, GO:0006355

CD Domains:

Go To Gene Page:

20778
21840 (Tp_HSF_2b) regulator [Rayko]

21840 - (Tp_HSF_2b) regulator [Rayko]

GO Terms:

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

CD Domains:

Go To Gene Page:

21840
22033 hypothetical protein

22033 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22033
23491 COG2374

23491 - COG2374

GO Terms:

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

CD Domains:

Go To Gene Page:

23491
23682 hypothetical protein

23682 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23682
23705 hypothetical protein

23705 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23705
24079 hypothetical protein

24079 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24079
24129 hypothetical protein

24129 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24129
24372 PqiA superfamily

24372 - PqiA superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

24372
25203 RRM_SF superfamily

25203 - RRM_SF superfamily

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

25203
25380 hypothetical protein

25380 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25380
25477 hypothetical protein

25477 - hypothetical protein

GO Terms:

GO:0006508, GO:0008237, GO:0008270

CD Domains:

Go To Gene Page:

25477
25634 PseudoU_synth superfamily

25634 - PseudoU_synth superfamily

GO Terms:

GO:0004730, GO:0008033, GO:0009982, GO:0016439

CD Domains:

Go To Gene Page:

25634
25647 hypothetical protein

25647 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25647
261832 Peptidases_S8_Kp43_protease

261832 - Peptidases_S8_Kp43_protease

GO Terms:

GO:0004289, GO:0006508, GO:0003676

CD Domains:

Go To Gene Page:

261832
262171 CAP_ED
262747 hypothetical protein

262747 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

262747
262826 DUF3608 superfamily

262826 - DUF3608 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

262826
264061 DSPc superfamily

264061 - DSPc superfamily

GO Terms:

GO:0006470, GO:0008138, GO:0004721

CD Domains:

Go To Gene Page:

264061
264439 DadA

264439 - DadA

GO Terms:

NA

CD Domains:

Go To Gene Page:

264439
264767 TPP_enzyme_PYR superfamily

264767 - TPP_enzyme_PYR superfamily

GO Terms:

GO:0004737

CD Domains:

Go To Gene Page:

264767
264905 FeFe_hydrog_A

264905 - FeFe_hydrog_A

GO Terms:

GO:0005489, GO:0005506, GO:0006118, GO:0008901, GO:0008137, GO:0030024

CD Domains:

Go To Gene Page:

264905
264907 (SelD) selD

264907 - (SelD) selD

GO Terms:

GO:0003824, GO:0004756, GO:0005524

CD Domains:

Go To Gene Page:

264907
264926 crtI_fam

264926 - crtI_fam

GO Terms:

GO:0016117, GO:0016705, GO:0050660

CD Domains:

Go To Gene Page:

264926
268889 SNF2_N
36960 SDR_c

36960 - SDR_c

GO Terms:

GO:0008152, GO:0016491, GO:0016404

CD Domains:

Go To Gene Page:

36960
3704 PDEase_I

3704 - PDEase_I

GO Terms:

GO:0004114, GO:0007165

CD Domains:

Go To Gene Page:

3704
37366 Peptidase_C19 superfamily

37366 - Peptidase_C19 superfamily

GO Terms:

GO:0004197, GO:0004221, GO:0006511

CD Domains:

Go To Gene Page:

37366
37376 (MYO6) MYSc

37376 - (MYO6) MYSc

GO Terms:

GO:0003774, GO:0005524, GO:0016459

CD Domains:

Go To Gene Page:

37376
37617 TTL

37617 - TTL

GO Terms:

GO:0004835, GO:0006464

CD Domains:

Go To Gene Page:

37617
3869 hypothetical protein

3869 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3869
3895 Nt_Gln_amidase superfamily

3895 - Nt_Gln_amidase superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

3895
41733 (THI1) PLN02444

41733 - (THI1) PLN02444

GO Terms:

GO:0009228

CD Domains:

Go To Gene Page:

41733
4334 PseudoU_synth_RluCD_like

4334 - PseudoU_synth_RluCD_like

GO Terms:

GO:0003723, GO:0006396, GO:0009982, GO:0016439

CD Domains:

Go To Gene Page:

4334
4655 EFh

4655 - EFh

GO Terms:

GO:0016021, GO:0016192, GO:0005509

CD Domains:

Go To Gene Page:

4655
5043 hypothetical protein

5043 - hypothetical protein

GO Terms:

GO:0004197, GO:0006508

CD Domains:

Go To Gene Page:

5043
6703 CBS_pair superfamily

6703 - CBS_pair superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

6703
6714 hypothetical protein

6714 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6714
6752 hypothetical protein

6752 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6752
7417 hypothetical protein

7417 - hypothetical protein

GO Terms:

GO:0005524, GO:0015986, GO:0016469, GO:0046933, GO:0046961, GO:0004339

CD Domains:

Go To Gene Page:

7417
7842 (Tp_AP2-EREBP11) regulator [Rayko]

7842 - (Tp_AP2-EREBP11) regulator [Rayko]

GO Terms:

GO:0003700, GO:0005634, GO:0006355

CD Domains:

Go To Gene Page:

7842
7917 HAD superfamily

7917 - HAD superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

7917
8090 hypothetical protein

8090 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8090
8519 hypothetical protein

8519 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8519
8928 hypothetical protein

8928 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8928
9314 hypothetical protein

9314 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9314
9575 hypothetical protein

9575 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9575

GO Enrichment

GO ID Go Term p-value q-value Cluster
GO:0007160 cell-matrix adhesion 0.00434533 1 Thaps_bicluster_0010
GO:0006979 response to oxidative stress 0.00767873 1 Thaps_bicluster_0010
GO:0007155 cell adhesion 0.0118559 1 Thaps_bicluster_0010
GO:0009228 thiamin biosynthesis 0.0221484 1 Thaps_bicluster_0010
GO:0016117 carotenoid biosynthesis 0.0438241 1 Thaps_bicluster_0010
GO:0016567 protein ubiquitination 0.0710848 1 Thaps_bicluster_0010
GO:0016192 vesicle-mediated transport 0.0857958 1 Thaps_bicluster_0010
GO:0008033 tRNA processing 0.0960082 1 Thaps_bicluster_0010
GO:0006470 protein amino acid dephosphorylation 0.13577 1 Thaps_bicluster_0010
GO:0007165 signal transduction 0.201336 1 Thaps_bicluster_0010

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