Thaps_bicluster_0059 Residual: 0.44
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_0059 0.44 Thalassiosira pseudonana
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Displaying 1 - 49 of 49
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10541 ALDH-SF superfamily

10541 - ALDH-SF superfamily

GO Terms:

GO:0008152, GO:0016491, GO:0004491, GO:0006573

CD Domains:

Go To Gene Page:

10541
10917 hypothetical protein

10917 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10917
10996 hypothetical protein

10996 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10996
11075 PRK12999

11075 - PRK12999

GO Terms:

GO:0003824, GO:0009374, GO:0005524, GO:0008152, GO:0016874, GO:0004736, GO:0005737, GO:0006094

CD Domains:

Go To Gene Page:

11075
11076 PRK12999

11076 - PRK12999

GO Terms:

GO:0003824, GO:0005524, GO:0008152, GO:0016874, GO:0004736, GO:0005737, GO:0006094

CD Domains:

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11076
11412 hypothetical protein

11412 - hypothetical protein

GO Terms:

NA

CD Domains:

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11412
11636 COG1233

11636 - COG1233

GO Terms:

GO:0016117, GO:0016705, GO:0050660

CD Domains:

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11636
11676 hypothetical protein

11676 - hypothetical protein

GO Terms:

NA

CD Domains:

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11676
11823 ANK

11823 - ANK

GO Terms:

NA

CD Domains:

Go To Gene Page:

11823
1341 hypothetical protein

1341 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1341
14147 PRK08198

14147 - PRK08198

GO Terms:

GO:0003824, GO:0008152, GO:0004794

CD Domains:

Go To Gene Page:

14147
14242 S_TKc

14242 - S_TKc

GO Terms:

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

CD Domains:

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14242
1791 hypothetical protein

1791 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1791
1855 hypothetical protein

1855 - hypothetical protein

GO Terms:

GO:0005554, GO:0016021

CD Domains:

Go To Gene Page:

1855
2019 hypothetical protein

2019 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2019
21045 hypothetical protein

21045 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21045
21447 hypothetical protein

21447 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21447
21539 EEVS

21539 - EEVS

GO Terms:

GO:0003856, GO:0009073

CD Domains:

Go To Gene Page:

21539
22372 HMGB-UBF_HMG-box

22372 - HMGB-UBF_HMG-box

GO Terms:

GO:0003677, GO:0006355

CD Domains:

Go To Gene Page:

22372
22409 hypothetical protein

22409 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22409
23983 hypothetical protein

23983 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23983
2420 RpsA

2420 - RpsA

GO Terms:

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

CD Domains:

Go To Gene Page:

2420
2521 Patatin_and_cPLA2 superfamily

2521 - Patatin_and_cPLA2 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

2521
261272 CBS_pair superfamily

261272 - CBS_pair superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

261272
261447 D-Amino acid dehydrogenase

261447 - D-Amino acid dehydrogenase

GO Terms:

NA

CD Domains:

Go To Gene Page:

261447
263105 (FCL1) FAA1

263105 - (FCL1) FAA1

GO Terms:

GO:0003824, GO:0008152, GO:0004467

CD Domains:

Go To Gene Page:

263105
263437 PLN02601 superfamily

263437 - PLN02601 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

263437
264651 hypothetical protein

264651 - hypothetical protein

GO Terms:

GO:0005489, GO:0006118

CD Domains:

Go To Gene Page:

264651
264759 Ggt

264759 - Ggt

GO Terms:

GO:0003840

CD Domains:

Go To Gene Page:

264759
264846 Peptidase_C1A

264846 - Peptidase_C1A

GO Terms:

GO:0004197, GO:0006508, GO:0008234, GO:0004215

CD Domains:

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264846
268248 hypothetical protein

268248 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

268248
29728 NADB_Rossmann superfamily

29728 - NADB_Rossmann superfamily

GO Terms:

GO:0003824, GO:0009225, GO:0005975, GO:0009045, GO:0016857

CD Domains:

Go To Gene Page:

29728
3040 SRPBCC superfamily

3040 - SRPBCC superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

3040
31316 pyruv_ox_red

31316 - pyruv_ox_red

GO Terms:

GO:0005489, GO:0005506, GO:0006118, GO:0016491, GO:0016625

CD Domains:

Go To Gene Page:

31316
31979 ENDO3c

31979 - ENDO3c

GO Terms:

GO:0006284

CD Domains:

Go To Gene Page:

31979
32944 PRK08139

32944 - PRK08139

GO Terms:

GO:0003824, GO:0008152, GO:0004300

CD Domains:

Go To Gene Page:

32944
38767 Peptidase_C1 superfamily

38767 - Peptidase_C1 superfamily

GO Terms:

GO:0004197, GO:0006508

CD Domains:

Go To Gene Page:

38767
413 HIBADH

413 - HIBADH

GO Terms:

GO:0006573, GO:0008442, GO:0005975, GO:0016614, GO:0004616, GO:0006098

CD Domains:

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413
5330 hypothetical protein

5330 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5330
5362 hypothetical protein

5362 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5362
5500 (PDK1_2) PRK09279

5500 - (PDK1_2) PRK09279

GO Terms:

GO:0016310, GO:0016772, GO:0005524, GO:0016301, GO:0050242

CD Domains:

Go To Gene Page:

5500
6123 ANK

6123 - ANK

GO Terms:

NA

CD Domains:

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6123
6361 PTZ00318

6361 - PTZ00318

GO Terms:

GO:0006118, GO:0016491, GO:0015036, GO:0005216, GO:0006811, GO:0016020, GO:0003954

CD Domains:

Go To Gene Page:

6361
6531 hypothetical protein

6531 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6531
6625 hypothetical protein

6625 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6625
6873 PRK05463

6873 - PRK05463

GO Terms:

NA

CD Domains:

Go To Gene Page:

6873
7003 hypothetical protein

7003 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7003
7325 hypothetical protein

7325 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7325
9689 (Tp_bZIP7b/PAS) regulator [Rayko]

9689 - (Tp_bZIP7b/PAS) regulator [Rayko]

GO Terms:

GO:0004871, GO:0007165

CD Domains:

Go To Gene Page:

9689
GO ID Go Term p-value q-value Cluster
GO:0006573 valine metabolism 0.000192527 0.526754 Thaps_bicluster_0059
GO:0006094 gluconeogenesis 0.00113463 1 Thaps_bicluster_0059
GO:0008152 metabolism 0.0262074 1 Thaps_bicluster_0059
GO:0006098 pentose-phosphate shunt 0.0342509 1 Thaps_bicluster_0059
GO:0006284 base-excision repair 0.0342509 1 Thaps_bicluster_0059
GO:0009073 aromatic amino acid family biosynthesis 0.0398483 1 Thaps_bicluster_0059
GO:0016117 carotenoid biosynthesis 0.0454144 1 Thaps_bicluster_0059
GO:0009225 nucleotide-sugar metabolism 0.0509494 1 Thaps_bicluster_0059
GO:0005975 carbohydrate metabolism 0.0692041 1 Thaps_bicluster_0059
GO:0016310 phosphorylation 0.0727814 1 Thaps_bicluster_0059
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