Thaps_bicluster_0053 Residual: 0.56
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_0053 0.56 Thalassiosira pseudonana
Displaying 1 - 43 of 43
1036 hypothetical protein

1036 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1036
10938 hypothetical protein

10938 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10938
11179 TGT

11179 - TGT

GO Terms:

GO:0006400, GO:0008479, GO:0008616

CD Domains:

Go To Gene Page:

11179
12292 ABCC_MRP_domain2

12292 - ABCC_MRP_domain2

GO Terms:

GO:0005524, GO:0006810, GO:0016021, GO:0042626, GO:0016887, GO:0000166, GO:0017111

CD Domains:

Go To Gene Page:

12292
1309 2OG-FeII_Oxy_3 superfamily

1309 - 2OG-FeII_Oxy_3 superfamily

GO Terms:

GO:0016706, GO:0019538

CD Domains:

Go To Gene Page:

1309
1381 hypothetical protein

1381 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1381
1595 hypothetical protein

1595 - hypothetical protein

GO Terms:

GO:0005515

CD Domains:

Go To Gene Page:

1595
16743 Peptidase_M48 superfamily

16743 - Peptidase_M48 superfamily

GO Terms:

GO:0004222, GO:0006508, GO:0016020

CD Domains:

Go To Gene Page:

16743
20670 hypothetical protein

20670 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20670
20743 hypothetical protein

20743 - hypothetical protein

GO Terms:

GO:0000810, GO:0004787, GO:0008722, GO:0008758, GO:0008796, GO:0008828, GO:0016462, GO:0016818, GO:0019176, GO:0019177

CD Domains:

Go To Gene Page:

20743
21283 hypothetical protein

21283 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21283
21409 SPRY_Ash2

21409 - SPRY_Ash2

GO Terms:

NA

CD Domains:

Go To Gene Page:

21409
21622 CBS_pair superfamily

21622 - CBS_pair superfamily

GO Terms:

GO:0005509, GO:0003676

CD Domains:

Go To Gene Page:

21622
22858 hypothetical protein

22858 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22858
23971 zf-UBR

23971 - zf-UBR

GO Terms:

GO:0004842, GO:0006512

CD Domains:

Go To Gene Page:

23971
24002 hypothetical protein

24002 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24002
24072 hypothetical protein

24072 - hypothetical protein

GO Terms:

GO:0004402

CD Domains:

Go To Gene Page:

24072
24094 hypothetical protein

24094 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

24094
24111 Lipase_3

24111 - Lipase_3

GO Terms:

GO:0003824, GO:0004806, GO:0006629

CD Domains:

Go To Gene Page:

24111
24224 hypothetical protein

24224 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24224
25499 hypothetical protein

25499 - hypothetical protein

GO Terms:

GO:0005488, GO:0006810, GO:0016020

CD Domains:

Go To Gene Page:

25499
25762 hypothetical protein

25762 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25762
262031 FH2

262031 - FH2

GO Terms:

GO:0003779, GO:0016043

CD Domains:

Go To Gene Page:

262031
264144 MFS

264144 - MFS

GO Terms:

GO:0005215, GO:0006810, GO:0016021

CD Domains:

Go To Gene Page:

264144
264413 UPF0029

264413 - UPF0029

GO Terms:

GO:0005554

CD Domains:

Go To Gene Page:

264413
264653 COG3899

264653 - COG3899

GO Terms:

GO:0000160, GO:0003677, GO:0006355

CD Domains:

Go To Gene Page:

264653
264783 MutL

264783 - MutL

GO Terms:

GO:0006298, GO:0005524

CD Domains:

Go To Gene Page:

264783
264915 ARO8

264915 - ARO8

GO Terms:

GO:0009042

CD Domains:

Go To Gene Page:

264915
3139 hypothetical protein

3139 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3139
3286 Glyco_tranf_2_4

3286 - Glyco_tranf_2_4

GO Terms:

NA

CD Domains:

Go To Gene Page:

3286
34289 hypothetical protein

34289 - hypothetical protein

GO Terms:

GO:0005524

CD Domains:

Go To Gene Page:

34289
34560 PRK09256

34560 - PRK09256

GO Terms:

GO:0003747, GO:0006415

CD Domains:

Go To Gene Page:

34560
4349 ANK

4349 - ANK

GO Terms:

NA

CD Domains:

Go To Gene Page:

4349
4352 hypothetical protein

4352 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4352
4891 hypothetical protein

4891 - hypothetical protein

GO Terms:

GO:0004721, GO:0006470

CD Domains:

Go To Gene Page:

4891
5778 hypothetical protein

5778 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5778
5802 STKc_AGC

5802 - STKc_AGC

GO Terms:

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

CD Domains:

Go To Gene Page:

5802
6045 Zinc_peptidase_like superfamily

6045 - Zinc_peptidase_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

6045
7453 SpoU_methylase superfamily

7453 - SpoU_methylase superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

7453
7676 hypothetical protein

7676 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7676
8180 hypothetical protein

8180 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8180
8256 hypothetical protein

8256 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8256
9804 hypothetical protein

9804 - hypothetical protein

GO Terms:

GO:0003824, GO:0005975

CD Domains:

Go To Gene Page:

9804
GO ID Go Term p-value q-value Cluster
GO:0008616 queuosine biosynthesis 0.0139887 1 Thaps_bicluster_0053
GO:0006400 tRNA modification 0.0139887 1 Thaps_bicluster_0053
GO:0016043 cell organization and biogenesis 0.017457 1 Thaps_bicluster_0053
GO:0006415 translational termination 0.0209137 1 Thaps_bicluster_0053
GO:0006810 transport 0.0248472 1 Thaps_bicluster_0053
GO:0006298 mismatch repair 0.0548579 1 Thaps_bicluster_0053
GO:0006470 protein amino acid dephosphorylation 0.0876921 1 Thaps_bicluster_0053
GO:0000160 two-component signal transduction system (phosphorelay) 0.0909158 1 Thaps_bicluster_0053
GO:0006629 lipid metabolism 0.0973311 1 Thaps_bicluster_0053
GO:0006512 ubiquitin cycle 0.119451 1 Thaps_bicluster_0053
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