Thaps_bicluster_0013 Residual: 0.47
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_0013 0.47 Thalassiosira pseudonana
Displaying 1 - 56 of 56
11454 C2B_Copine

11454 - C2B_Copine

GO Terms:

NA

CD Domains:

Go To Gene Page:

11454
11905 hypothetical protein

11905 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11905
1428 hypothetical protein

1428 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1428
14370 WD40 superfamily

14370 - WD40 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

14370
1492 hypothetical protein

1492 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1492
17140 AdoMet_MTases superfamily

17140 - AdoMet_MTases superfamily

GO Terms:

GO:0008757, GO:0003824, GO:0004766

CD Domains:

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17140
17228 Tryp_SPc

17228 - Tryp_SPc

GO Terms:

GO:0004295, GO:0006508, GO:0004263

CD Domains:

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17228
18846 IFT46_B_C superfamily

18846 - IFT46_B_C superfamily

GO Terms:

NA

CD Domains:

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18846
20577 hypothetical protein

20577 - hypothetical protein

GO Terms:

GO:0008766, GO:0016881, GO:0018169

CD Domains:

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20577
21200 hypothetical protein

21200 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21200
21292 ArsB_NhaD_permease superfamily

21292 - ArsB_NhaD_permease superfamily

GO Terms:

NA

CD Domains:

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21292
21718 hypothetical protein

21718 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21718
21727 DENN superfamily

21727 - DENN superfamily

GO Terms:

GO:0005515

CD Domains:

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21727
21850 hypothetical protein

21850 - hypothetical protein

GO Terms:

GO:0000074

CD Domains:

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21850
22337 hypothetical protein

22337 - hypothetical protein

GO Terms:

NA

CD Domains:

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22337
23240 hypothetical protein

23240 - hypothetical protein

GO Terms:

NA

CD Domains:

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23240
23247 choice_anch_B

23247 - choice_anch_B

GO Terms:

NA

CD Domains:

Go To Gene Page:

23247
23261 (Tp_fungal_TRF1a) regulator [Rayko]

23261 - (Tp_fungal_TRF1a) regulator [Rayko]

GO Terms:

GO:0003700, GO:0005634, GO:0006355, GO:0008270

CD Domains:

Go To Gene Page:

23261
23688 hypothetical protein

23688 - hypothetical protein

GO Terms:

GO:0000285

CD Domains:

Go To Gene Page:

23688
2399 Str_synth superfamily

2399 - Str_synth superfamily

GO Terms:

GO:0009058, GO:0016844

CD Domains:

Go To Gene Page:

2399
24153 hypothetical protein

24153 - hypothetical protein

GO Terms:

GO:0008152, GO:0016491, GO:0005351, GO:0009401

CD Domains:

Go To Gene Page:

24153
24187 hypothetical protein

24187 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24187
24189 (Tp_bZIP14) regulator [Rayko]

24189 - (Tp_bZIP14) regulator [Rayko]

GO Terms:

GO:0003677, GO:0005634, GO:0006355

CD Domains:

Go To Gene Page:

24189
24387 vWFA superfamily

24387 - vWFA superfamily

GO Terms:

NA

CD Domains:

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24387
24649 hypothetical protein

24649 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24649
25050 ArfGap

25050 - ArfGap

GO Terms:

GO:0043087

CD Domains:

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25050
25295 Gst

25295 - Gst

GO Terms:

GO:0006508, GO:0008237, GO:0008270

CD Domains:

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25295
25393 hypothetical protein

25393 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25393
261479 (Tp_E2F-DP1a_SET1a) DP superfamily

261479 - (Tp_E2F-DP1a_SET1a) DP superfamily

GO Terms:

GO:0000074, GO:0003700, GO:0005667, GO:0006355

CD Domains:

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261479
262099 PLPDE_III_AR

262099 - PLPDE_III_AR

GO Terms:

GO:0006522, GO:0008784

CD Domains:

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262099
26224 SPFH_prohibitin

26224 - SPFH_prohibitin

GO Terms:

NA

CD Domains:

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26224
26398 Peptidase_C12_UCH37_BAP1

26398 - Peptidase_C12_UCH37_BAP1

GO Terms:

GO:0004221, GO:0005622, GO:0006511

CD Domains:

Go To Gene Page:

26398
264431 Steroid_dh superfamily

264431 - Steroid_dh superfamily

GO Terms:

GO:0016021, GO:0003865

CD Domains:

Go To Gene Page:

264431
268404 (Lig1) dnl1

268404 - (Lig1) dnl1

GO Terms:

GO:0003910, GO:0005524, GO:0006260, GO:0006281, GO:0006310

CD Domains:

Go To Gene Page:

268404
270031 MhpC

270031 - MhpC

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

270031
270113 hypothetical protein

270113 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

270113
29183 PRK12344

29183 - PRK12344

GO Terms:

GO:0003824, GO:0019752, GO:0046912, GO:0003852

CD Domains:

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29183
2996 hypothetical protein

2996 - hypothetical protein

GO Terms:

NA

CD Domains:

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2996
30921 MtN3_slv superfamily

30921 - MtN3_slv superfamily

GO Terms:

GO:0005554, GO:0016020

CD Domains:

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30921
32596 Tryp_SPc

32596 - Tryp_SPc

GO Terms:

GO:0004295, GO:0006508

CD Domains:

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32596
3328 hypothetical protein

3328 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3328
35690 CysH

35690 - CysH

GO Terms:

GO:0003723, GO:0005525, GO:0005786, GO:0006614, GO:0008152, GO:0016740, GO:0004604, GO:0019379

CD Domains:

Go To Gene Page:

35690
35808 SOUL

35808 - SOUL

GO Terms:

NA

CD Domains:

Go To Gene Page:

35808
4536 hypothetical protein

4536 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4536
4609 hypothetical protein

4609 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4609
4878 hypothetical protein

4878 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4878
6640 hypothetical protein

6640 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6640
7630 hypothetical protein

7630 - hypothetical protein

GO Terms:

GO:0004672, GO:0005524, GO:0006468, GO:0005351, GO:0009401

CD Domains:

Go To Gene Page:

7630
8370 ANK

8370 - ANK

GO Terms:

GO:0006457, GO:0031072, GO:0051082

CD Domains:

Go To Gene Page:

8370
843 Rab1_Ypt1

843 - Rab1_Ypt1

GO Terms:

GO:0005525, GO:0007264, GO:0006886, GO:0000160, GO:0003677, GO:0006355, GO:0015031

CD Domains:

Go To Gene Page:

843
8964 LRR_RI superfamily

8964 - LRR_RI superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

8964
909 hypothetical protein

909 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

909
9258 HP_PGM_like

9258 - HP_PGM_like

GO Terms:

NA

CD Domains:

Go To Gene Page:

9258
9301 hypothetical protein

9301 - hypothetical protein

GO Terms:

GO:0003677

CD Domains:

Go To Gene Page:

9301
9551 hypothetical protein

9551 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9551
GO ID Go Term p-value q-value Cluster
GO:0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system 0.0060732 1 Thaps_bicluster_0013
GO:0006522 alanine metabolism 0.00661567 1 Thaps_bicluster_0013
GO:0019379 sulfate assimilation, phosphoadenylyl sulfate reduction by phosphoadenylyl-sulfate reductase (thioredoxin) 0.00661567 1 Thaps_bicluster_0013
GO:0019752 carboxylic acid metabolism 0.0131889 1 Thaps_bicluster_0013
GO:0006030 chitin metabolic process 0.0131889 1 Thaps_bicluster_0013
GO:0006614 SRP-dependent cotranslational protein-membrane targeting 0.0390631 1 Thaps_bicluster_0013
GO:0000074 regulation of cell cycle 0.0591753 1 Thaps_bicluster_0013
GO:0043087 regulation of GTPase activity 0.0642796 1 Thaps_bicluster_0013
GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolism 0.0948998 1 Thaps_bicluster_0013
GO:0006310 DNA recombination 0.118695 1 Thaps_bicluster_0013
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