Thaps_bicluster_0040 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_0040 0.39 Thalassiosira pseudonana
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Displaying 1 - 53 of 53
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10085 hypothetical protein

10085 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10085
10403 MscS

10403 - MscS

GO Terms:

GO:0016020

CD Domains:

Go To Gene Page:

10403
10972 AdoMet_MTases

10972 - AdoMet_MTases

GO Terms:

GO:0008757

CD Domains:

Go To Gene Page:

10972
11659 hypothetical protein

11659 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11659
12012 Thioredoxin_like superfamily

12012 - Thioredoxin_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

12012
174 COG4670

174 - COG4670

GO Terms:

GO:0008260

CD Domains:

Go To Gene Page:

174
17480 PKc_like superfamily

17480 - PKc_like superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

17480
1979 YbaK_like

1979 - YbaK_like

GO Terms:

NA

CD Domains:

Go To Gene Page:

1979
20835 hypothetical protein

20835 - hypothetical protein

GO Terms:

GO:0008570

CD Domains:

Go To Gene Page:

20835
20868 hypothetical protein

20868 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

20868
2118 Ptr

2118 - Ptr

GO Terms:

GO:0004222, GO:0006508, GO:0004231

CD Domains:

Go To Gene Page:

2118
21832 2OG-FeII_Oxy_2

21832 - 2OG-FeII_Oxy_2

GO Terms:

NA

CD Domains:

Go To Gene Page:

21832
22134 hypothetical protein

22134 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22134
22837 hypothetical protein

22837 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22837
23258 hypothetical protein

23258 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23258
23857 PUB

23857 - PUB

GO Terms:

GO:0005489, GO:0006118, GO:0003676, GO:0005634, GO:0008270, GO:0003756

CD Domains:

Go To Gene Page:

23857
2418 hypothetical protein

2418 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2418
25189 hypothetical protein

25189 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25189
25240 hypothetical protein

25240 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25240
25331 hypothetical protein

25331 - hypothetical protein

GO Terms:

GO:0008570

CD Domains:

Go To Gene Page:

25331
260965 ABC_ATPase

260965 - ABC_ATPase

GO Terms:

NA

CD Domains:

Go To Gene Page:

260965
260997 PKc_like superfamily

260997 - PKc_like superfamily

GO Terms:

GO:0004672, GO:0005524, GO:0006468

CD Domains:

Go To Gene Page:

260997
261788 AdoMet_MTases

261788 - AdoMet_MTases

GO Terms:

GO:0008757

CD Domains:

Go To Gene Page:

261788
261979 hypothetical protein

261979 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

261979
267922 proteasome_beta_type_1

267922 - proteasome_beta_type_1

GO Terms:

GO:0004175, GO:0005839, GO:0006511, GO:0004298, GO:0004299

CD Domains:

Go To Gene Page:

267922
268092 PRK06199 superfamily

268092 - PRK06199 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

268092
268329 Synaptobrevin

268329 - Synaptobrevin

GO Terms:

GO:0016021, GO:0016192

CD Domains:

Go To Gene Page:

268329
268761 hypothetical protein

268761 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

268761
270060 HA

270060 - HA

GO Terms:

GO:0005215, GO:0006810

CD Domains:

Go To Gene Page:

270060
32805 AAA

32805 - AAA

GO Terms:

GO:0005524, GO:0000166, GO:0017111

CD Domains:

Go To Gene Page:

32805
36629 PLN03227

36629 - PLN03227

GO Terms:

GO:0009058, GO:0016769, GO:0004758, GO:0017059

CD Domains:

Go To Gene Page:

36629
37464 cyclophilin superfamily

37464 - cyclophilin superfamily

GO Terms:

GO:0006457, GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

37464
38576 PLN03227

38576 - PLN03227

GO Terms:

GO:0009058, GO:0016769, GO:0004758, GO:0017059

CD Domains:

Go To Gene Page:

38576
3946 hypothetical protein

3946 - hypothetical protein

GO Terms:

GO:0004190, GO:0006508

CD Domains:

Go To Gene Page:

3946
41433 PRK06116

41433 - PRK06116

GO Terms:

GO:0006118, GO:0016491, GO:0050660, GO:0015036, GO:0005737, GO:0004362, GO:0006749

CD Domains:

Go To Gene Page:

41433
41650 betA

41650 - betA

GO Terms:

GO:0006118, GO:0016491, GO:0016614, GO:0050660, GO:0008812

CD Domains:

Go To Gene Page:

41650
4168 hypothetical protein

4168 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4168
4490 hypothetical protein

4490 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4490
4867 SBF superfamily

4867 - SBF superfamily

GO Terms:

GO:0006814, GO:0008508, GO:0016020

CD Domains:

Go To Gene Page:

4867
5108 DUF3727

5108 - DUF3727

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

5108
516 (RPT5) RPT1

516 - (RPT5) RPT1

GO Terms:

GO:0000166, GO:0017111, GO:0005524, GO:0005634, GO:0005737, GO:0016787, GO:0030163

CD Domains:

Go To Gene Page:

516
5168 hypothetical protein

5168 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5168
6204 hypothetical protein

6204 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6204
6651 hypothetical protein

6651 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6651
7025 (Tp_Myb2R6) L-asparaginase_like superfamily

7025 - (Tp_Myb2R6) L-asparaginase_like superfamily

GO Terms:

GO:0003677, GO:0005634, GO:0006520

CD Domains:

Go To Gene Page:

7025
7110 hypothetical protein

7110 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7110
7505 hypothetical protein

7505 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7505
8106 hypothetical protein

8106 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8106
8669 hypothetical protein

8669 - hypothetical protein

GO Terms:

GO:0000151, GO:0004842, GO:0008270, GO:0016567

CD Domains:

Go To Gene Page:

8669
8703 MviM

8703 - MviM

GO Terms:

GO:0006118, GO:0008152, GO:0016491, GO:0050112

CD Domains:

Go To Gene Page:

8703
8821 CHD

8821 - CHD

GO Terms:

GO:0007242, GO:0009190, GO:0016849, GO:0004016, GO:0008294

CD Domains:

Go To Gene Page:

8821
9396 hypothetical protein

9396 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9396
GO ID Go Term p-value q-value Cluster
GO:0006749 glutathione metabolism 0.0094884 1 Thaps_bicluster_0040
GO:0009058 biosynthesis 0.0275704 1 Thaps_bicluster_0040
GO:0006118 electron transport 0.0346279 1 Thaps_bicluster_0040
GO:0006814 sodium ion transport 0.0511308 1 Thaps_bicluster_0040
GO:0030163 protein catabolism 0.0601545 1 Thaps_bicluster_0040
GO:0016192 vesicle-mediated transport 0.0735363 1 Thaps_bicluster_0040
GO:0006520 amino acid metabolism 0.0954353 1 Thaps_bicluster_0040
GO:0009190 cyclic nucleotide biosynthesis 0.0997553 1 Thaps_bicluster_0040
GO:0007242 intracellular signaling cascade 0.182122 1 Thaps_bicluster_0040
GO:0015031 protein transport 0.186045 1 Thaps_bicluster_0040
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