Thaps_bicluster_0070 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_0070 0.44 Thalassiosira pseudonana
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Displaying 1 - 30 of 30
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10833 hypothetical protein

10833 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10833
11219 hypothetical protein

11219 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11219
12063 hypothetical protein

12063 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12063
13149 (DIC2) WD40 superfamily

13149 - (DIC2) WD40 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

13149
1477 hypothetical protein

1477 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1477
1555 hypothetical protein

1555 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1555
1783 Meckelin superfamily

1783 - Meckelin superfamily

GO Terms:

GO:0001584, GO:0007186, GO:0016021

CD Domains:

Go To Gene Page:

1783
21387 Peptidase_M48 superfamily

21387 - Peptidase_M48 superfamily

GO Terms:

GO:0004222, GO:0006508, GO:0016020, GO:0008237, GO:0008270

CD Domains:

Go To Gene Page:

21387
22031 Sin_N superfamily

22031 - Sin_N superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

22031
2217 hypothetical protein

2217 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2217
2219 hypothetical protein

2219 - hypothetical protein

GO Terms:

GO:0003700, GO:0005634, GO:0006355, GO:0003677

CD Domains:

Go To Gene Page:

2219
22354 hypothetical protein

22354 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22354
22508 hypothetical protein

22508 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22508
2321 DnaQ_like_exo superfamily

2321 - DnaQ_like_exo superfamily

GO Terms:

GO:0003676, GO:0005622, GO:0008408

CD Domains:

Go To Gene Page:

2321
260941 CDP-OH_P_transf superfamily

260941 - CDP-OH_P_transf superfamily

GO Terms:

GO:0008654, GO:0008444

CD Domains:

Go To Gene Page:

260941
261481 FTO_NTD

261481 - FTO_NTD

GO Terms:

NA

CD Domains:

Go To Gene Page:

261481
263499 CdsA

263499 - CdsA

GO Terms:

NA

CD Domains:

Go To Gene Page:

263499
269065 Methyltransf_4 superfamily

269065 - Methyltransf_4 superfamily

GO Terms:

GO:0008757, GO:0008176

CD Domains:

Go To Gene Page:

269065
269333 PTR2 superfamily

269333 - PTR2 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

269333
270310 hypothetical protein

270310 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270310
3190 hypothetical protein

3190 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3190
36506 PseudoU_synth superfamily

36506 - PseudoU_synth superfamily

GO Terms:

GO:0004730, GO:0008033

CD Domains:

Go To Gene Page:

36506
37559 DUF572

37559 - DUF572

GO Terms:

NA

CD Domains:

Go To Gene Page:

37559
38289 KefB

38289 - KefB

GO Terms:

GO:0006813

CD Domains:

Go To Gene Page:

38289
38735 hypothetical protein

38735 - hypothetical protein

GO Terms:

GO:0000158, GO:0004721, GO:0004723, GO:0004724, GO:0005963, GO:0008420, GO:0008597, GO:0015071, GO:0017018, GO:0017020, GO:0017023, GO:0030357

CD Domains:

Go To Gene Page:

38735
38770 AAA

38770 - AAA

GO Terms:

GO:0000166, GO:0017111, GO:0005524, GO:0008568

CD Domains:

Go To Gene Page:

38770
3970 hypothetical protein

3970 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3970
41246 PRK14333

41246 - PRK14333

GO Terms:

GO:0005554, GO:0003824, GO:0005506

CD Domains:

Go To Gene Page:

41246
5789 hypothetical protein

5789 - hypothetical protein

GO Terms:

GO:0008757

CD Domains:

Go To Gene Page:

5789
6638 ANK

6638 - ANK

GO Terms:

NA

CD Domains:

Go To Gene Page:

6638
GO ID Go Term p-value q-value Cluster
GO:0008654 phospholipid biosynthesis 0.0172498 1 Thaps_bicluster_0070
GO:0008033 tRNA processing 0.0221325 1 Thaps_bicluster_0070
GO:0007186 G-protein coupled receptor protein signaling pathway 0.0257813 1 Thaps_bicluster_0070
GO:0006813 potassium ion transport 0.026995 1 Thaps_bicluster_0070
GO:0006508 proteolysis and peptidolysis 0.308243 1 Thaps_bicluster_0070
GO:0006355 regulation of transcription, DNA-dependent 0.325408 1 Thaps_bicluster_0070
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