Thaps_bicluster_0006 Residual: 0.41
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_0006 0.41 Thalassiosira pseudonana
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Displaying 1 - 53 of 53
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1023 hypothetical protein

1023 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1023
1031 hypothetical protein

1031 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1031
11118 EFh

11118 - EFh

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

11118
11346 hypothetical protein

11346 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11346
11623 HSF_DNA-bind superfamily

11623 - HSF_DNA-bind superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

11623
1204 hypothetical protein

1204 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1204
12128 hypothetical protein

12128 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12128
18158 DUF2453

18158 - DUF2453

GO Terms:

NA

CD Domains:

Go To Gene Page:

18158
18665 (CLPP2) S14_ClpP_2

18665 - (CLPP2) S14_ClpP_2

GO Terms:

GO:0006508, GO:0008462

CD Domains:

Go To Gene Page:

18665
1870 COG3899

1870 - COG3899

GO Terms:

NA

CD Domains:

Go To Gene Page:

1870
22656 metallo-dependent_hydrolases superfamily

22656 - metallo-dependent_hydrolases superfamily

GO Terms:

GO:0016888

CD Domains:

Go To Gene Page:

22656
22810 hypothetical protein

22810 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22810
23505 hypothetical protein

23505 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23505
24087 hypothetical protein

24087 - hypothetical protein

GO Terms:

GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

24087
25041 hypothetical protein

25041 - hypothetical protein

GO Terms:

GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

25041
25369 DUF4517 superfamily

25369 - DUF4517 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

25369
25833 hypothetical protein

25833 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25833
261492 HAM1

261492 - HAM1

GO Terms:

GO:0016787, GO:0047429

CD Domains:

Go To Gene Page:

261492
261657 ZntA

261657 - ZntA

GO Terms:

GO:0008152, GO:0016787, GO:0005524, GO:0006812, GO:0015662, GO:0016020, GO:0003824, GO:0016021, GO:0030001, GO:0016820

CD Domains:

Go To Gene Page:

261657
262296 Hydrolase_4 superfamily

262296 - Hydrolase_4 superfamily

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

262296
263354 Fer4_NifH superfamily

263354 - Fer4_NifH superfamily

GO Terms:

GO:0006461, GO:0016151

CD Domains:

Go To Gene Page:

263354
263682 hypothetical protein

263682 - hypothetical protein

GO Terms:

GO:0004812, GO:0005524, GO:0006418

CD Domains:

Go To Gene Page:

263682
264717 Peptidase_M14_like superfamily

264717 - Peptidase_M14_like superfamily

GO Terms:

GO:0008152, GO:0016788, GO:0019807

CD Domains:

Go To Gene Page:

264717
268988 (CPF3) crypto_DASH

268988 - (CPF3) crypto_DASH

GO Terms:

GO:0003913, GO:0006281, GO:0003904

CD Domains:

Go To Gene Page:

268988
270141 (KAS3) PLN02326

270141 - (KAS3) PLN02326

GO Terms:

GO:0004315, GO:0006633

CD Domains:

Go To Gene Page:

270141
3022 hypothetical protein

3022 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

3022
3065 hypothetical protein

3065 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3065
3160 hypothetical protein

3160 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3160
32319 5_nucleotid superfamily

32319 - 5_nucleotid superfamily

GO Terms:

GO:0008253, GO:0017175

CD Domains:

Go To Gene Page:

32319
3256 hypothetical protein

3256 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3256
33973 Patatin_and_cPLA2 superfamily

33973 - Patatin_and_cPLA2 superfamily

GO Terms:

GO:0003824, GO:0045735

CD Domains:

Go To Gene Page:

33973
3587 SRPBCC superfamily

3587 - SRPBCC superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

3587
37944 UPF0061 superfamily

37944 - UPF0061 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

37944
37961 tim10-like protein

37961 - tim10-like protein

GO Terms:

GO:0006626, GO:0042721, GO:0045039

CD Domains:

Go To Gene Page:

37961
39936 MPP_PP1_PPKL

39936 - MPP_PP1_PPKL

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:

39936
4215 LRR_RI superfamily

4215 - LRR_RI superfamily

GO Terms:

GO:0008152, GO:0016491

CD Domains:

Go To Gene Page:

4215
4405 hypothetical protein

4405 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4405
4758 (Tp_HSF_2.2e) HSF_DNA-bind superfamily

4758 - (Tp_HSF_2.2e) HSF_DNA-bind superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

4758
5265 VEFS-Box superfamily

5265 - VEFS-Box superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

5265
5328 hypothetical protein

5328 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5328
5657 hypothetical protein

5657 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5657
6240 hypothetical protein

6240 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6240
7094 COG1233

7094 - COG1233

GO Terms:

GO:0016117, GO:0016705, GO:0050660

CD Domains:

Go To Gene Page:

7094
7330 NYN_YacP

7330 - NYN_YacP

GO Terms:

GO:0004672, GO:0005524, GO:0006468

CD Domains:

Go To Gene Page:

7330
7462 hypothetical protein

7462 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7462
8227 hypothetical protein

8227 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8227
8449 hypothetical protein

8449 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8449
8740 hypothetical protein

8740 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8740
943 hypothetical protein

943 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

943
9710 (mapk) PKc_like superfamily

9710 - (mapk) PKc_like superfamily

GO Terms:

GO:0004672, GO:0005524, GO:0006468, GO:0004713, GO:0004674, GO:0004707, GO:0004682, GO:0004691, GO:0005952, GO:0005956, GO:0008603, GO:0008605

CD Domains:

Go To Gene Page:

9710
9737 hypothetical protein

9737 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9737
9756 Ribosomal_L21p superfamily

9756 - Ribosomal_L21p superfamily

GO Terms:

GO:0003723, GO:0003735, GO:0005622, GO:0005840, GO:0006412

CD Domains:

Go To Gene Page:

9756
ThpsCp085 (psbA) photosystem II protein D1

ThpsCp085 - (psbA) photosystem II protein D1

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp085
GO ID Go Term p-value q-value Cluster
GO:0045039 mitochondrial inner membrane protein import 0.0156247 1 Thaps_bicluster_0006
GO:0006626 protein-mitochondrial targeting 0.0156247 1 Thaps_bicluster_0006
GO:0006461 protein complex assembly 0.0271911 1 Thaps_bicluster_0006
GO:0016117 carotenoid biosynthesis 0.0310179 1 Thaps_bicluster_0006
GO:0030001 metal ion transport 0.0499389 1 Thaps_bicluster_0006
GO:0006633 fatty acid biosynthesis 0.0721821 1 Thaps_bicluster_0006
GO:0006812 cation transport 0.156318 1 Thaps_bicluster_0006
GO:0015986 ATP synthesis coupled proton transport 0.166312 1 Thaps_bicluster_0006
GO:0006281 DNA repair 0.166312 1 Thaps_bicluster_0006
GO:0006418 tRNA aminoacylation for protein translation 0.202004 1 Thaps_bicluster_0006
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