Thaps_bicluster_0097 Residual: 0.39
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_0097 0.39 Thalassiosira pseudonana
Displaying 1 - 48 of 48
10178 hypothetical protein

10178 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10178
10207 hypothetical protein

10207 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

10207
11114 UPF0004

11114 - UPF0004

GO Terms:

GO:0016853

CD Domains:

Go To Gene Page:

11114
1134 DSPc superfamily

1134 - DSPc superfamily

GO Terms:

GO:0006470, GO:0008138, GO:0004721

CD Domains:

Go To Gene Page:

1134
1412 TraB superfamily

1412 - TraB superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

1412
1563 hypothetical protein

1563 - hypothetical protein

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

1563
1629 hypothetical protein

1629 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1629
1882 Gn_AT_II superfamily

1882 - Gn_AT_II superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

1882
19081 hypothetical protein

19081 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

19081
20431 zf-CHC2 superfamily

20431 - zf-CHC2 superfamily

GO Terms:

GO:0003677, GO:0003896, GO:0006260

CD Domains:

Go To Gene Page:

20431
20504 cyclophilin superfamily

20504 - cyclophilin superfamily

GO Terms:

GO:0006457

CD Domains:

Go To Gene Page:

20504
21750 Octopine_DH superfamily

21750 - Octopine_DH superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

21750
2244 hypothetical protein

2244 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2244
22801 hypothetical protein

22801 - hypothetical protein

GO Terms:

GO:0004812, GO:0005524, GO:0006418

CD Domains:

Go To Gene Page:

22801
23622 RhaT

23622 - RhaT

GO Terms:

GO:0016020

CD Domains:

Go To Gene Page:

23622
24218 hypothetical protein

24218 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24218
24451 TFIIS_I superfamily

24451 - TFIIS_I superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

24451
24615 hypothetical protein

24615 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24615
261325 ARM

261325 - ARM

GO Terms:

NA

CD Domains:

Go To Gene Page:

261325
261341

261341 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

261341
261876 (ZFP9) hypothetical protein

261876 - (ZFP9) hypothetical protein

GO Terms:

GO:0003677, GO:0006355

CD Domains:

Go To Gene Page:

261876
261998 (FRU3) frustulin protein

261998 - (FRU3) frustulin protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

261998
262512 hypothetical protein

262512 - hypothetical protein

GO Terms:

GO:0008757

CD Domains:

Go To Gene Page:

262512
262593 (MTH1_2) Nudix_Hydrolase superfamily

262593 - (MTH1_2) Nudix_Hydrolase superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

262593
262844 heat shock protein

262844 - heat shock protein

GO Terms:

GO:0006457, GO:0031072, GO:0051082

CD Domains:

Go To Gene Page:

262844
267977 MATE_like superfamily

267977 - MATE_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

267977
268179 DTW superfamily

268179 - DTW superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

268179
268845 COG3899

268845 - COG3899

GO Terms:

NA

CD Domains:

Go To Gene Page:

268845
269985 ELFV_dehydrog_N

269985 - ELFV_dehydrog_N

GO Terms:

GO:0004353

CD Domains:

Go To Gene Page:

269985
2959 hypothetical protein

2959 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2959
31928 ATM1

31928 - ATM1

GO Terms:

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

CD Domains:

Go To Gene Page:

31928
32154 (infC) IF3_C superfamily

32154 - (infC) IF3_C superfamily

GO Terms:

GO:0003743, GO:0006413

CD Domains:

Go To Gene Page:

32154
32486 HA

32486 - HA

GO Terms:

NA

CD Domains:

Go To Gene Page:

32486
33600 PTZ00184

33600 - PTZ00184

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

33600
33726 STKc_CDK9_like

33726 - STKc_CDK9_like

GO Terms:

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

CD Domains:

Go To Gene Page:

33726
3674 hypothetical protein

3674 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3674
38466 SpoU_methylase superfamily

38466 - SpoU_methylase superfamily

GO Terms:

GO:0003723, GO:0006396, GO:0008173

CD Domains:

Go To Gene Page:

38466
38752 hypothetical protein

38752 - hypothetical protein

GO Terms:

GO:0008766, GO:0016881, GO:0018169

CD Domains:

Go To Gene Page:

38752
40473 AMMECR1

40473 - AMMECR1

GO Terms:

NA

CD Domains:

Go To Gene Page:

40473
5488 CAP_ED

5488 - CAP_ED

GO Terms:

GO:0005509, GO:0005216, GO:0006811, GO:0016020, GO:0000287, GO:0008152, GO:0016462

CD Domains:

Go To Gene Page:

5488
5779 hypothetical protein

5779 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5779
7419 hypothetical protein

7419 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7419
7804 MATE_like superfamily

7804 - MATE_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

7804
7870 hypothetical protein

7870 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7870
8161 hypothetical protein

8161 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8161
8924 hypothetical protein

8924 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8924
9103 hypothetical protein

9103 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9103
9125 hypothetical protein

9125 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9125
GO ID Go Term p-value q-value Cluster
GO:0006754 ATP biosynthetic process 0.00289436 1 Thaps_bicluster_0097
GO:0005975 carbohydrate metabolic process 0.0143942 1 Thaps_bicluster_0097
GO:0006811 ion transport 0.0509236 1 Thaps_bicluster_0097
GO:0006457 protein folding 0.0528208 1 Thaps_bicluster_0097
GO:0006413 translational initiation 0.0673557 1 Thaps_bicluster_0097
GO:0006470 protein amino acid dephosphorylation 0.0727741 1 Thaps_bicluster_0097
GO:0006260 DNA replication 0.0967972 1 Thaps_bicluster_0097
GO:0015986 ATP synthesis coupled proton transport 0.125374 1 Thaps_bicluster_0097
GO:0006418 tRNA aminoacylation for protein translation 0.153109 1 Thaps_bicluster_0097
GO:0006396 RNA processing 0.155589 1 Thaps_bicluster_0097
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