Thaps_bicluster_0076 Residual: 0.36
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_0076 0.36 Thalassiosira pseudonana
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Displaying 1 - 36 of 36
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10012 TAP42 superfamily

10012 - TAP42 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

10012
10297 hypothetical protein

10297 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10297
10510 hypothetical protein

10510 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10510
10592 hypothetical protein

10592 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10592
10613 (Tp_HSF_4.2c) HSF_DNA-bind

10613 - (Tp_HSF_4.2c) HSF_DNA-bind

GO Terms:

GO:0003700, GO:0005634, GO:0006355, GO:0003676, GO:0003677

CD Domains:

Go To Gene Page:

10613
11295 (Tp_fungal_TRF2) regulator [Rayko]

11295 - (Tp_fungal_TRF2) regulator [Rayko]

GO Terms:

GO:0003700, GO:0005634, GO:0006355, GO:0008270

CD Domains:

Go To Gene Page:

11295
13326 Choline_transpo

13326 - Choline_transpo

GO Terms:

GO:0001584, GO:0007186, GO:0016021

CD Domains:

Go To Gene Page:

13326
1502 hypothetical protein

1502 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1502
19351 hypothetical protein

19351 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

19351
21284 CCT

21284 - CCT

GO Terms:

NA

CD Domains:

Go To Gene Page:

21284
22580 hypothetical protein

22580 - hypothetical protein

GO Terms:

GO:0004402

CD Domains:

Go To Gene Page:

22580
22943 hypothetical protein

22943 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22943
23040 DUF1501 superfamily

23040 - DUF1501 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

23040
23441 Patatin_and_cPLA2 superfamily

23441 - Patatin_and_cPLA2 superfamily

GO Terms:

GO:0003824, GO:0045735

CD Domains:

Go To Gene Page:

23441
23577 Nudix_Hydrolase superfamily

23577 - Nudix_Hydrolase superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

23577
23606 hypothetical protein

23606 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

23606
23716 hypothetical protein

23716 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23716
24993 hypothetical protein

24993 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24993
25911 (Tp_bZIP6_PAS) regulator [Rayko]

25911 - (Tp_bZIP6_PAS) regulator [Rayko]

GO Terms:

GO:0003677, GO:0005634, GO:0006355, GO:0004402

CD Domains:

Go To Gene Page:

25911
263722 FIG superfamily

263722 - FIG superfamily

GO Terms:

GO:0004437

CD Domains:

Go To Gene Page:

263722
264350 (Tp_CCHH1_Myb2R10) Bromodomain superfamily

264350 - (Tp_CCHH1_Myb2R10) Bromodomain superfamily

GO Terms:

GO:0003677, GO:0006355

CD Domains:

Go To Gene Page:

264350
268548 alcohol_DH_class_III

268548 - alcohol_DH_class_III

GO Terms:

GO:0003824, GO:0008270, GO:0016491

CD Domains:

Go To Gene Page:

268548
2942 hypothetical protein

2942 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

2942
2956 hypothetical protein

2956 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2956
2984 Dynein_heavy superfamily

2984 - Dynein_heavy superfamily

GO Terms:

GO:0004197, GO:0006508, GO:0003777, GO:0007018, GO:0030286, GO:0008567

CD Domains:

Go To Gene Page:

2984
30990 Aldo_ket_red

30990 - Aldo_ket_red

GO Terms:

GO:0016491

CD Domains:

Go To Gene Page:

30990
32480 AAA_12

32480 - AAA_12

GO Terms:

NA

CD Domains:

Go To Gene Page:

32480
35206 hypothetical protein

35206 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

35206
36634 Flavodoxin_1

36634 - Flavodoxin_1

GO Terms:

GO:0005489, GO:0006118, GO:0010181, GO:0016491

CD Domains:

Go To Gene Page:

36634
37609 PKc_like superfamily

37609 - PKc_like superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

37609
3795 HA

3795 - HA

GO Terms:

NA

CD Domains:

Go To Gene Page:

3795
4654 hypothetical protein

4654 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4654
4824 hypothetical protein

4824 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4824
4865 hypothetical protein

4865 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4865
990 hypothetical protein

990 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

990
GO ID Go Term p-value q-value Cluster
GO:0006118 electron transport 0.432304 1 Thaps_bicluster_0076
GO:0007186 G-protein coupled receptor protein signaling pathway 0.0426158 1 Thaps_bicluster_0076
GO:0007018 microtubule-based movement 0.0855012 1 Thaps_bicluster_0076
GO:0006813 potassium ion transport 0.0446037 1 Thaps_bicluster_0076
GO:0006468 protein amino acid phosphorylation 0.362866 1 Thaps_bicluster_0076
GO:0006508 proteolysis and peptidolysis 0.459068 1 Thaps_bicluster_0076
GO:0006355 regulation of transcription, DNA-dependent 0.00246101 1 Thaps_bicluster_0076
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