Thaps_bicluster_0109 Residual: 0.50
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_0109 0.50 Thalassiosira pseudonana

Module Plots

Motifs

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Members

Displaying 1 - 60 of 60
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11229 COG1272

11229 - COG1272

GO Terms:

GO:0016021

CD Domains:

Go To Gene Page:

11229
11842 sigpep_I_bact

11842 - sigpep_I_bact

GO Terms:

GO:0006508, GO:0008236, GO:0004244, GO:0008717

CD Domains:

Go To Gene Page:

11842
1241 hypothetical protein

1241 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1241
14225 DEADc

14225 - DEADc

GO Terms:

GO:0003676, GO:0005524, GO:0008026, GO:0004386

CD Domains:

Go To Gene Page:

14225
14293 hypothetical protein

14293 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

14293
17687 AAA

17687 - AAA

GO Terms:

GO:0000166, GO:0017111, GO:0005524

CD Domains:

Go To Gene Page:

17687
20576 hypothetical protein

20576 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20576
20726 (MDH1) PLN00106

20726 - (MDH1) PLN00106

GO Terms:

GO:0006100, GO:0016491, GO:0006108, GO:0016615, GO:0030060

CD Domains:

Go To Gene Page:

20726
20828 hypothetical protein

20828 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20828
20832 HPP

20832 - HPP

GO Terms:

NA

CD Domains:

Go To Gene Page:

20832
21476 hypothetical protein

21476 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21476
21972 hypothetical protein

21972 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21972
22197 Aldo_ket_red

22197 - Aldo_ket_red

GO Terms:

GO:0016491, GO:0008708, GO:0008726, GO:0016614, GO:0018446, GO:0018447, GO:0018448, GO:0018449, GO:0018450, GO:0042469, GO:0045703

CD Domains:

Go To Gene Page:

22197
22951 BetA

22951 - BetA

GO Terms:

GO:0006118, GO:0016491, GO:0016614, GO:0050660, GO:0008812

CD Domains:

Go To Gene Page:

22951
22989 (Tp_Myb1R_SHAQKYF9a) MYB DNA binding protein/ transcription factor-like protein

22989 - (Tp_Myb1R_SHAQKYF9a) MYB DNA binding protein/ transcription factor-like protein

GO Terms:

GO:0003677, GO:0005634

CD Domains:

Go To Gene Page:

22989
23055 hypothetical protein

23055 - hypothetical protein

GO Terms:

GO:0003677

CD Domains:

Go To Gene Page:

23055
23101 hypothetical protein

23101 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23101
23295 Trp_Tyr_perm superfamily

23295 - Trp_Tyr_perm superfamily

GO Terms:

GO:0005279, GO:0006865, GO:0016020

CD Domains:

Go To Gene Page:

23295
23381 hypothetical protein

23381 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23381
23449 hypothetical protein

23449 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23449
23653 hypothetical protein

23653 - hypothetical protein

GO Terms:

GO:0000074

CD Domains:

Go To Gene Page:

23653
23657 globin

23657 - globin

GO Terms:

GO:0005488, GO:0006810

CD Domains:

Go To Gene Page:

23657
23658 hypothetical protein

23658 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23658
24060 hypothetical protein

24060 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24060
24255 hypothetical protein

24255 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24255
25121 hypothetical protein

25121 - hypothetical protein

GO Terms:

GO:0005489, GO:0006118

CD Domains:

Go To Gene Page:

25121
25124 hypothetical protein

25124 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25124
25133 hypothetical protein

25133 - hypothetical protein

GO Terms:

GO:0003677, GO:0006355

CD Domains:

Go To Gene Page:

25133
25299 PLN02252

25299 - PLN02252

GO Terms:

GO:0006118, GO:0016491, GO:0009703

CD Domains:

Go To Gene Page:

25299
25875 hypothetical protein

25875 - hypothetical protein

GO Terms:

GO:0005489, GO:0006118

CD Domains:

Go To Gene Page:

25875
260862 GrpE superfamily

260862 - GrpE superfamily

GO Terms:

GO:0000774, GO:0006457, GO:0042803, GO:0051087

CD Domains:

Go To Gene Page:

260862
261430 Aa_trans superfamily

261430 - Aa_trans superfamily

GO Terms:

GO:0005279, GO:0006865, GO:0016020

CD Domains:

Go To Gene Page:

261430
261885 RRM1_RBM34

261885 - RRM1_RBM34

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

261885
26192 (GDH_2) PTZ00079

26192 - (GDH_2) PTZ00079

GO Terms:

GO:0006520, GO:0016491, GO:0004354

CD Domains:

Go To Gene Page:

26192
262408 6PGL

262408 - 6PGL

GO Terms:

GO:0006098, GO:0017057

CD Domains:

Go To Gene Page:

262408
262809 plant_peroxidase_like superfamily

262809 - plant_peroxidase_like superfamily

GO Terms:

GO:0004601, GO:0006979, GO:0016688

CD Domains:

Go To Gene Page:

262809
264296 HP_PGM_like

264296 - HP_PGM_like

GO Terms:

GO:0003824, GO:0008152

CD Domains:

Go To Gene Page:

264296
264364 PLN02929

264364 - PLN02929

GO Terms:

NA

CD Domains:

Go To Gene Page:

264364
264420 PseudoU_synth_EcTruA

264420 - PseudoU_synth_EcTruA

GO Terms:

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

CD Domains:

Go To Gene Page:

264420
264847 (Tp_HSF_2.5d) regulator [Rayko]

264847 - (Tp_HSF_2.5d) regulator [Rayko]

GO Terms:

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

CD Domains:

Go To Gene Page:

264847
264946 MA3

264946 - MA3

GO Terms:

GO:0004437

CD Domains:

Go To Gene Page:

264946
268929 PLN02885

268929 - PLN02885

GO Terms:

GO:0004516, GO:0019363

CD Domains:

Go To Gene Page:

268929
268963 Pumilio

268963 - Pumilio

GO Terms:

GO:0003723, GO:0016071

CD Domains:

Go To Gene Page:

268963
269274 (NRT2) 2A0108

269274 - (NRT2) 2A0108

GO Terms:

GO:0015103, GO:0015698, GO:0016021, GO:0005215, GO:0006810

CD Domains:

Go To Gene Page:

269274
269297 S_TKc

269297 - S_TKc

GO Terms:

GO:0004672, GO:0005524, GO:0006468, GO:0004713, GO:0004674

CD Domains:

Go To Gene Page:

269297
27365 PTZ00480

27365 - PTZ00480

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:

27365
3163 SET

3163 - SET

GO Terms:

NA

CD Domains:

Go To Gene Page:

3163
3223 hypothetical protein

3223 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3223
36971 PRK05704

36971 - PRK05704

GO Terms:

GO:0003824, GO:0006633, GO:0008152, GO:0008415, GO:0004149, GO:0006099, GO:0045252, GO:0009354

CD Domains:

Go To Gene Page:

36971
37854 Pex19 superfamily

37854 - Pex19 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

37854
4012 AIM24

4012 - AIM24

GO Terms:

NA

CD Domains:

Go To Gene Page:

4012
4086 LRR_5

4086 - LRR_5

GO Terms:

NA

CD Domains:

Go To Gene Page:

4086
42660 PLN02824

42660 - PLN02824

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

42660
42719 (ASSY) Argininosuccinate_Synthase

42719 - (ASSY) Argininosuccinate_Synthase

GO Terms:

GO:0004055, GO:0005524, GO:0006526

CD Domains:

Go To Gene Page:

42719
6248 hypothetical protein

6248 - hypothetical protein

GO Terms:

GO:0005489, GO:0005506, GO:0006118

CD Domains:

Go To Gene Page:

6248
6658 hypothetical protein

6658 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6658
8344 hypothetical protein

8344 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8344
8437 E1-E2_ATPase superfamily

8437 - E1-E2_ATPase superfamily

GO Terms:

GO:0005524, GO:0016020, GO:0016820

CD Domains:

Go To Gene Page:

8437
8654 (Tp_HSF_2.5c) HSF_DNA-bind superfamily

8654 - (Tp_HSF_2.5c) HSF_DNA-bind superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

8654
9883 hypothetical protein

9883 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9883

GO Enrichment

GO ID Go Term p-value q-value Cluster
GO:0015698 inorganic anion transport 0.0123672 1 Thaps_bicluster_0109
GO:0019363 pyridine nucleotide biosynthesis 0.0123672 1 Thaps_bicluster_0109
GO:0006100 tricarboxylic acid cycle intermediate metabolism 0.0123672 1 Thaps_bicluster_0109
GO:0006865 amino acid transport 0.0136089 1 Thaps_bicluster_0109
GO:0006108 malate metabolism 0.0184952 1 Thaps_bicluster_0109
GO:0006118 electron transport 0.0222662 1 Thaps_bicluster_0109
GO:0006098 pentose-phosphate shunt 0.0366595 1 Thaps_bicluster_0109
GO:0016071 mRNA metabolism 0.0544987 1 Thaps_bicluster_0109
GO:0006526 arginine biosynthesis 0.0544987 1 Thaps_bicluster_0109
GO:0006099 tricarboxylic acid cycle 0.0603738 1 Thaps_bicluster_0109

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