Thaps_bicluster_0100 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_0100 0.39 Thalassiosira pseudonana
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Displaying 1 - 36 of 36
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10533 hypothetical protein

10533 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10533
11542 PseudoU_synth superfamily

11542 - PseudoU_synth superfamily

GO Terms:

GO:0004730, GO:0008033, GO:0009982, GO:0016439

CD Domains:

Go To Gene Page:

11542
12821 (Sig1) hypothetical protein

12821 - (Sig1) hypothetical protein

GO Terms:

GO:0005198

CD Domains:

Go To Gene Page:

12821
14096 (AMT3) amt

14096 - (AMT3) amt

GO Terms:

GO:0006810, GO:0008519, GO:0016020

CD Domains:

Go To Gene Page:

14096
15605 PKc_like superfamily

15605 - PKc_like superfamily

GO Terms:

GO:0005952, GO:0006468, GO:0008603, GO:0004672, GO:0004682, GO:0004691, GO:0005956, GO:0008605

CD Domains:

Go To Gene Page:

15605
1564 DUF667

1564 - DUF667

GO Terms:

NA

CD Domains:

Go To Gene Page:

1564
17492 COG1179

17492 - COG1179

GO Terms:

GO:0003824, GO:0004842

CD Domains:

Go To Gene Page:

17492
20625 DUF4602

20625 - DUF4602

GO Terms:

NA

CD Domains:

Go To Gene Page:

20625
21346 hypothetical protein

21346 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21346
21802 hypothetical protein

21802 - hypothetical protein

GO Terms:

GO:0003910

CD Domains:

Go To Gene Page:

21802
23048 hypothetical protein

23048 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23048
23865 CE4_SF superfamily

23865 - CE4_SF superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

23865
23872 GLTP superfamily

23872 - GLTP superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

23872
23897 hypothetical protein

23897 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

23897
24292 (Tp_CCCH9) regulator [Rayko]

24292 - (Tp_CCCH9) regulator [Rayko]

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

24292
25697 ANK

25697 - ANK

GO Terms:

NA

CD Domains:

Go To Gene Page:

25697
262616 (MYB22)

262616 - (MYB22)

GO Terms:

NA

CD Domains:

Go To Gene Page:

262616
262980 DEXDc

262980 - DEXDc

GO Terms:

GO:0005524, GO:0008026, GO:0003676, GO:0004386

CD Domains:

Go To Gene Page:

262980
264799 intraflagellar transport protein, bld1, osm-6

264799 - intraflagellar transport protein, bld1, osm-6

GO Terms:

NA

CD Domains:

Go To Gene Page:

264799
264883 hypothetical protein

264883 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

264883
26553 ABC_MTABC3_MDL1_MDL2
268143 Nudix_Hydrolase

268143 - Nudix_Hydrolase

GO Terms:

NA

CD Domains:

Go To Gene Page:

268143
269503 (Tp_HSF_1e) regulator [Rayko]

269503 - (Tp_HSF_1e) regulator [Rayko]

GO Terms:

GO:0003700, GO:0005634, GO:0006355

CD Domains:

Go To Gene Page:

269503
31145 COG4581
34973 DPPIV_N

34973 - DPPIV_N

GO Terms:

GO:0003824, GO:0006508, GO:0008236, GO:0004287, GO:0004274

CD Domains:

Go To Gene Page:

34973
38051 AAA_17 superfamily

38051 - AAA_17 superfamily

GO Terms:

GO:0003824, GO:0008152, GO:0005524, GO:0006003

CD Domains:

Go To Gene Page:

38051
39062 SpoU

39062 - SpoU

GO Terms:

GO:0003723, GO:0006396, GO:0008173

CD Domains:

Go To Gene Page:

39062
39592 (NRT3) 2A0108

39592 - (NRT3) 2A0108

GO Terms:

NA

CD Domains:

Go To Gene Page:

39592
7019 mTERF superfamily

7019 - mTERF superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

7019
7482 hypothetical protein

7482 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7482
7509 hypothetical protein

7509 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7509
8503 DUF2431

8503 - DUF2431

GO Terms:

NA

CD Domains:

Go To Gene Page:

8503
9199 hypothetical protein

9199 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9199
9818 hypothetical protein

9818 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9818
GO ID Go Term p-value q-value Cluster
GO:0006003 fructose 2,6-bisphosphate metabolism 0.00371824 1 Thaps_bicluster_0100
GO:0008033 tRNA processing 0.0330245 1 Thaps_bicluster_0100
GO:0006810 transport 0.0434482 1 Thaps_bicluster_0100
GO:0006396 RNA processing 0.102965 1 Thaps_bicluster_0100
GO:0006468 protein amino acid phosphorylation 0.333459 1 Thaps_bicluster_0100
GO:0006508 proteolysis and peptidolysis 0.424754 1 Thaps_bicluster_0100
GO:0006355 regulation of transcription, DNA-dependent 0.446038 1 Thaps_bicluster_0100
GO:0008152 metabolism 0.546944 1 Thaps_bicluster_0100
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