Thaps_bicluster_0121 Residual: 0.36
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_0121 0.36 Thalassiosira pseudonana
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Displaying 1 - 39 of 39
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10381 hypothetical protein

10381 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10381
11966 hypothetical protein

11966 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11966
1214 hypothetical protein

1214 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1214
15539 CysS

15539 - CysS

GO Terms:

GO:0004817, GO:0005524, GO:0006423

CD Domains:

Go To Gene Page:

15539
1880 hypothetical protein

1880 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1880
2008 hypothetical protein

2008 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2008
20698 Ras_like_GTPase superfamily

20698 - Ras_like_GTPase superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

20698
20945 Tim17

20945 - Tim17

GO Terms:

GO:0005743, GO:0008565, GO:0015031

CD Domains:

Go To Gene Page:

20945
21599 NDUFA12 superfamily

21599 - NDUFA12 superfamily

GO Terms:

GO:0005489, GO:0005743, GO:0006118, GO:0008137

CD Domains:

Go To Gene Page:

21599
22830 Choline_transpo

22830 - Choline_transpo

GO Terms:

NA

CD Domains:

Go To Gene Page:

22830
23811 ABC_ATPase superfamily

23811 - ABC_ATPase superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

23811
2454 V-SNARE_C superfamily

2454 - V-SNARE_C superfamily

GO Terms:

GO:0006886, GO:0016021

CD Domains:

Go To Gene Page:

2454
25453 hypothetical protein

25453 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25453
260937 PKc

260937 - PKc

GO Terms:

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

CD Domains:

Go To Gene Page:

260937
261169

261169 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

261169
262751 ERO1

262751 - ERO1

GO Terms:

NA

CD Domains:

Go To Gene Page:

262751
263637 MviM

263637 - MviM

GO Terms:

GO:0006118, GO:0008152, GO:0016491

CD Domains:

Go To Gene Page:

263637
263929 transporter

263929 - transporter

GO Terms:

GO:0005215, GO:0006810, GO:0016021

CD Domains:

Go To Gene Page:

263929
264362 LRR_RI superfamily

264362 - LRR_RI superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

264362
2818 hypothetical protein

2818 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2818
34283 NADB_Rossmann superfamily

34283 - NADB_Rossmann superfamily

GO Terms:

GO:0008152, GO:0016491, GO:0000252, GO:0000253, GO:0004448, GO:0004495, GO:0008875, GO:0016229, GO:0016616, GO:0018451, GO:0018452, GO:0018453, GO:0048258

CD Domains:

Go To Gene Page:

34283
34390 IMPase

34390 - IMPase

GO Terms:

GO:0004437, GO:0008934

CD Domains:

Go To Gene Page:

34390
3592 hypothetical protein

3592 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3592
41045 (DGD3) dTDP_GD_SDR_e

41045 - (DGD3) dTDP_GD_SDR_e

GO Terms:

GO:0003824, GO:0009225, GO:0008152, GO:0016491, GO:0008460

CD Domains:

Go To Gene Page:

41045
41547 Mito_carr

41547 - Mito_carr

GO Terms:

GO:0005488, GO:0006810, GO:0016020, GO:0005743, GO:0005215

CD Domains:

Go To Gene Page:

41547
4253 Dcp1

4253 - Dcp1

GO Terms:

GO:0003923, GO:0016787, GO:0051336

CD Domains:

Go To Gene Page:

4253
42828 ISOPREN_C2_like superfamily

42828 - ISOPREN_C2_like superfamily

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

42828
4448 DUF914

4448 - DUF914

GO Terms:

NA

CD Domains:

Go To Gene Page:

4448
4501 EMP24_GP25L

4501 - EMP24_GP25L

GO Terms:

NA

CD Domains:

Go To Gene Page:

4501
4552 NADB_Rossmann superfamily

4552 - NADB_Rossmann superfamily

GO Terms:

GO:0001584, GO:0007186, GO:0016021, GO:0003854, GO:0006694, GO:0000252, GO:0047012

CD Domains:

Go To Gene Page:

4552
4691 hypothetical protein

4691 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4691
5699 hypothetical protein

5699 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5699
6252 hypothetical protein

6252 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6252
6348 GGCT_like

6348 - GGCT_like

GO Terms:

NA

CD Domains:

Go To Gene Page:

6348
6483 hypothetical protein

6483 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6483
6491 hypothetical protein

6491 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6491
8582 hypothetical protein

8582 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8582
8643 hypothetical protein

8643 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8643
9203 hypothetical protein

9203 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9203
GO ID Go Term p-value q-value Cluster
GO:0006810 transport 0.134855 1 Thaps_bicluster_0121
GO:0007018 microtubule-based movement 0.141059 1 Thaps_bicluster_0121
GO:0015031 protein transport 0.141059 1 Thaps_bicluster_0121
GO:0008152 metabolism 0.167146 1 Thaps_bicluster_0121
GO:0006886 intracellular protein transport 0.17401 1 Thaps_bicluster_0121
GO:0006118 electron transport 0.23943 1 Thaps_bicluster_0121
GO:0006468 protein amino acid phosphorylation 0.535543 1 Thaps_bicluster_0121
GO:0006694 steroid biosynthesis 0.00351458 1 Thaps_bicluster_0121
GO:0006423 cysteinyl-tRNA aminoacylation 0.0105089 1 Thaps_bicluster_0121
GO:0005975 carbohydrate metabolic process 0.017457 1 Thaps_bicluster_0121
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